Re: Debian
On 10/19/2021 09:08 AM, Dan Ritter wrote: piorunz wrote: On 19/10/2021 13:10, lou wrote: On 19/10/2021 12:11, courtneyxshort wrote: I am a Computer Science Masters student and part of my degree involves me downloading Debian on my Mac. I have tried this countless times and I have been unsuccessful. I've watched Youtube videos/ read the information on your website and I am still unable to do this. Is this something you could please help me with? I would be so grateful. Courtney Computer Science Masters student don't know how to download (use) debian on Mac?? it's quite unbelievable. Yep, sounds fishy. It's getting towards off-topic, but I can confirm that just because a person is working on a CS master's degree, that doesn't mean they have any degree of competence. There is a major university here in the Boston area where the CS undergrads are consistently better than the graduate students. My company gets many of both interviewing for temporary positions. The undergrads tend to be clever, curious, and ready to learn; the grad students are frequently (not always) prone to making up fantasy answers rather than admitting that they don't know something. -dsr- I will agree that this thread is approaching 0ff-topic, but I find some of the replies rather amusing. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Xfce4 Problem with User Desktop Background Color
On 10/16/2021 07:13 AM, Dan Ritter wrote: Stephen P. Molnar wrote: Thank your for your reply. I find that right click on the desktop no longer brings up the Desktop Settings. This still works in the root desktop. Your recommendation for desktop settings is what I routinely use. Ah-hah! Mike Kupfer's suggestion is correct. xfdesktop is not running. Start it. -dsr- That was the problem. Thank you, very much. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Xfce4 Problem with User Desktop Background Color
On 10/15/2021 08:16 PM, Keith Bainbridge wrote: On Fri, 15 Oct 2021 09:51:46 -0400 Dan Ritter wrote: Given your second message, it is clear that this is a configuration issue that is under the control of your normal user, not an OS-wide problem. You will not need to reinstall. G'day All If you can't find a solution by adjusting settings, try starting your config again delet: .config/xfce4/ You'll be asked if you want a new default set up All the best Keith Bainbridge keith.bainbridge.3...@gmail.com 0447 667 468 Unfortunately,that Wiped out all of the Panel entries. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Xfce4 Problem with User Desktop Background Color
On 10/15/2021 06:18 PM, Lee wrote: On 10/15/21, Stephen P. Molnar wrote: On 10/15/2021 09:51 AM, Dan Ritter wrote: Stephen P. Molnar wrote: Hit send a bit too soon. The Root desktop is not affected by the problem. On 10/15/2021 09:16 AM, Stephen P. Molnar wrote: I am running Debian Buster with th e Xfce4 Desktop. This morning after a reboot the User Background color was no longer the color that was set - black, but the entire desktop opened with an overall gray background. Rebooting restored the black desktop, but opening an app and then closing it left the background gray where the app was opened I don't have the faintest idea what happened or how to fix it. I really don't whant to have to reinstall Debian. Given your second message, it is clear that this is a configuration issue that is under the control of your normal user, not an OS-wide problem. You will not need to reinstall. -dsr- Thank you for the encouraging reply, but how do I fix the problem? Settings Manager - Desktop - Wallpaper for my desktop appears to be completely grayed out and is unresponsive. Your assistance is much appreciated. This opening an app and then closing it left the background gray where the app was opened sounds more like a video driver issue, but you can try setting the background color again. Right click on an empty space on the desktop & left click on Desktop Settings Left click on the Background tab (Wallpaper for my desktop is also grayed out on my machine), but below that panel there's a Color: selection, pick Solid Color, click on the color sample and select black. Put a checkmark next to "Apply to all workspaces", make sure there's no checkmark for "Change the background" and click on Close Regards, Lee Thank your for your reply. I find that right click on the desktop no longer brings up the Desktop Settings. This still works in the root desktop. Your recommendation for desktop settings is what I routinely use. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Xfce4 Problem with User Desktop Background Color
On 10/15/2021 09:51 AM, Dan Ritter wrote: Stephen P. Molnar wrote: Hit send a bit too soon. The Root desktop is not affected by the problem. On 10/15/2021 09:16 AM, Stephen P. Molnar wrote: I am running Debian Buster with th e Xfce4 Desktop. This morning after a reboot the User Background color was no longer the color that was set - black, but the entire desktop opened with an overall gray background. Rebooting restored the black desktop, but opening an app and then closing it left the background gray where the app was opened I don't have the faintest idea what happened or how to fix it. I really don't whant to have to reinstall Debian. Given your second message, it is clear that this is a configuration issue that is under the control of your normal user, not an OS-wide problem. You will not need to reinstall. -dsr- Thank you for the encouraging reply, but how do I fix the problem? Settings Manager - Desktop - Wallpaper for my desktop appears to be completely grayed out and is unresponsive. Your assistance is much appreciated. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Xfce4 Problem with User Desktop Background Color
Hit send a bit too soon. The Root desktop is not affected by the problem. On 10/15/2021 09:16 AM, Stephen P. Molnar wrote: I am running Debian Buster with th e Xfce4 Desktop. This morning after a reboot the User Background color was no longer the color that was set - black, but the entire desktop opened with an overall gray background. Rebooting restored the black desktop, but opening an app and then closing it left the background gray where the app was opened I don't have the faintest idea what happened or how to fix it. I really don't whant to have to reinstall Debian. A solution will be much appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1 -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Xfce4 Problem with User Desktop Background Color
I am running Debian Buster with th e Xfce4 Desktop. This morning after a reboot the User Background color was no longer the color that was set - black, but the entire desktop opened with an overall gray background. Rebooting restored the black desktop, but opening an app and then closing it left the background gray where the app was opened I don't have the faintest idea what happened or how to fix it. I really don't whant to have to reinstall Debian. A solution will be much appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: All-in-One printer: HP OfficeJet 8012
On 08/10/2021 10:14 AM, Nicolas George wrote: Hi. We need to replace an all-in-one printer-scanner, a HP Deskjet 3054A. Based on past experience, I am favoring HP, because AFAIK they mostly play fair about Libre drivers, and their ink is too expensive but not insanely so. The HP OfficeJet 8012 seems the most interesting available at my preferred vendor (LDLC). As far as I can see, it would be supported through driverless printing and sane-hpaio. Am I mistaken? The vendor has other models has other models by Epson, Canon and Brother. I remember these brands have caused trouble to users of Libre software, unlike HP who develops its own Libre tools. I want to buy according to my ethics. Has one of them turned its policy around enough to warrant considering it? Is there any other remark you may want to do about it? (If your remark is along the lines: "not inkjet, laser" or "not all-in-one, separate devices", save your time, I have already heard the arguments and I know the constraints I am working with.) Thanks in advance. Regards, For what it might be worth, I switched to a Brother DCP-L2550DW Laser Printer a couple of years ago. I has given me no problems with Buster (or with my Win 10 Laptop). There are after market dealers out there that have replacement for Toner Cartridges and Drums for a reasonable price. Iroutinly get 1200 to 1500 pagers per Toner Cartridge. Of course, if your looking for color, this is not the printer for you. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
VirtualBox Problem
First off, let me say that I am not trying to start a war or nasty exchange4of insults. I am forced by circumstance to run a Linux program on my Windows 10 Laptop. In order to accomplish his I have installed Buster in a VirtualBox v-6.1. Although the AMD Rizen 5 CPU has eight threads, of which the VirtualBox only allows four of the threads to be used. Unfortunately , perhaps not too surprisingly, neither the Windows 10 or VirtualBox sources seem to have a solution that I can find. Google is defiantly not my friend. Can anyone in Linux land be of help? Thanks in advance, -- Stephen P. Molnar, Ph.D. 614.312.7528 (c) Skype: smolnar1
Re: Buster on Win 10 Problems
On 06/29/2021 12:46 PM, ellanios82 wrote: On 6/29/21 6:36 PM, Stephen P. Molnar wrote: have dual booted platforms in the past, and would prefer not to do so to solve the problems - juz sayin' : some years back , i had need for a Windows program : put Virtual-Box on Linux desktop : result was Alfa-Alfa-Perfect . . . no probs whatsoever : terrific !! regards . Thanks for the reply and suggestion. As a matter of fact I have just that on my main platform, running Buster. I can't say that I'm impressed with the performance. However, I need to put a suite of Computational Chemistry programs on my Win 10 Laptop, both as a backup for my main platform and for traveling. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
RE: Buster on Win 10 Problems
-Original Message- From: ellanios82 Sent: Tuesday, June 29, 2021 12:46 PM To: debian-user@lists.debian.org Subject: Re: Buster on Win 10 Problems On 6/29/21 6:36 PM, Stephen P. Molnar wrote: > have dual booted platforms in the past, and would prefer not to do so > to solve the problems - juz sayin' : some years back , i had need for a Windows program : put Virtual-Box on Linux desktop : result was Alfa-Alfa-Perfect . . . no probs whatsoever : terrific !! regards I've gone that route. Not the best solution for numerical computation in my opinion. Bit thanks for the suggestion.
RE: Buster on Win 10 Problems
-Original Message- From: to...@tuxteam.de Sent: Tuesday, June 29, 2021 12:43 PM To: Stephen P. Molnar Cc: debian-user@lists.debian.org Subject: Re: Buster on Win 10 Problems On Tue, Jun 29, 2021 at 11:39:59AM -0400, Stephen P. Molnar wrote: > > > On 06/29/2021 11:12 AM, Marco M�ller wrote: > >On 29.06.21 15:28, Stephen P. Molnar wrote: [...] > >I suppose you are using the WSL2. > >When I recently have had a look at it, the first mayor thing of > >importance which I noticed was, correct me if I observed it wrong, > >that it is using a Linux kernel from Microsoft and not the kernel > >from Debian (or a kernel from Ubuntu, or openSUSE, or Red Hat > >etc.) [...] > Thanks for the detailed reply. > > Yes, you are quite correct with regard to the provence of the kernel. Perhaps you're better off running a virtual Windows under kvm instead of a Linux kernel fat-fingered [1] by Microsoft? There are many howtos out there for this option, It seems quite doable. Cheers [1] If that sounds biased it's because it is. - t Nothing wrong with bias. Personally. I'm biased, in favor of Linux. I've used it since the earliest days of Slackware and Red Hat.
RE: Buster on Win 10 Problems
-Original Message- From: David Sent: Tuesday, June 29, 2021 12:39 PM To: debian-user Subject: Re: Buster on Win 10 Problems On Tue, 29 Jun 2021 at 23:28, Stephen P. Molnar wrote: > I have a very important application for my Computational Chemistry > research program that has never been ported to Linux. 1) Do you have the source code? 2) Does it require a graphical user interface? 3) What language is it written in? If the answers are yes, no, and something reasonable, then it might not be a big task for someone to port it. And then the problem is solved properly and you don't have to spend time on all the other complicated issues of running multiple operating systems. 1.Yes 2. No 3. C++ Not a big task!??? That's the first thing I thought of. Certainly not for someone who knows what to what they ae be doing. Unfortunately, that someone is not me. My first programming experience was in FORTRAN II in the early 1960's as a grad student and I can bumble my way, with a lot of help, in Python and bash scripting. I tried but was not successful. Are you volunteering?
Re: Buster on Win 10 Problems
On 06/29/2021 11:12 AM, Marco M�ller wrote: On 29.06.21 15:28, Stephen P. Molnar wrote: First, let me assure the list that I am not trying to ignite a flame war. I have a legitimate reason for installing Debian Buster on my Windows 10 laptop using Windows Subsystem Linux and X410. I have a very important application for my Computational Chemistry research program that has never been ported to Linux. After much thrashing about and hair pulling (little enough to begin with) I succeeded. However, there are several problems, minor but annoying. I�m using the xfe4 desktop. The Application Manager Logout function will only allow Logout; Restart and Shutdown are grayed out. On the System level, clicking on the Synaptic Package Manager entry in the pulldown manual does not open the app; sudo synaptic in the Xfce Terminal opens the app and it is fully functional. (...) I will not be able to fully answer your question, I have only an idea for you which might or might not help you to advance. I suppose you are using the WSL2. When I recently have had a look at it, the first mayor thing of importance which I noticed was, correct me if I observed it wrong, that it is using a Linux kernel from Microsoft and not the kernel from Debian (or a kernel from Ubuntu, or openSUSE, or Red Hat etc.), although you installed the "Debian app". Well, the Debian app is kind of a collection of commands as typically found at the command line after a bare minimal Debian install directly to the hardware, and a collection of Debian alike configuration files to make the by MS provided kernel and the commands pulled in by the Debian app to behave somewhat as you would expect it from a Debian OS install. But this does not change that the kernel from Microsoft does not use systemd. Maybe the grayed out Restart and Shutdown buttons are a consequence of this? Good Luck! Marco. Thanks for the detailed reply. Yes, you are quite correct with regard to the provence of the kernel. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Buster on Win 10 Problems
Thanks for the reply. I have dual booted platforms in the past, and would prefer not to do so to solve the problems. These problems are not show stoppers, but rather annoying. On 06/29/2021 10:29 AM, Peter Ehlert wrote: Have you investigated the possibility of Dual Booting? it's a bit complicated, but it works. Separate Disk Dive is best On 6/29/21 6:28 AM, Stephen P. Molnar wrote: First, let me assure the list that I am not trying to ignite a flame war. I have a legitimate reason for installing Debian Buster on my Windows 10 laptop using Windows Subsystem Linux and X410. I have a very important application for my Computational Chemistry research program that has never been ported to Linux. After much thrashing about and hair pulling (little enough to begin with) I succeeded. However, there are several problems, minor but annoying. I�m using the xfe4 desktop. The Application Manager Logout function will only allow Logout; Restart and Shutdown are grayed out. On the System level, clicking on the Synaptic Package Manager entry in the pulldown manual does not open the app; sudo synaptic in the Xfce Terminal opens the app and it is fully functional. I hope to receive advise from this list. I shudder to think of having to query MS, even if I got an answer it would be very murky and impossible to implement. Thanks in advance. Stephen P. Molnar, Ph.D. (614)312-7528 Skype: smolnar1 -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Buster on Win 10 Problems
First, let me assure the list that I am not trying to ignite a flame war. I have a legitimate reason for installing Debian Buster on my Windows 10 laptop using Windows Subsystem Linux and X410. I have a very important application for my Computational Chemistry research program that has never been ported to Linux. After much thrashing about and hair pulling (little enough to begin with) I succeeded. However, there are several problems, minor but annoying. I'm using the xfe4 desktop. The Application Manager Logout function will only allow Logout; Restart and Shutdown are grayed out. On the System level, clicking on the Synaptic Package Manager entry in the pulldown manual does not open the app; sudo synaptic in the Xfce Terminal opens the app and it is fully functional. I hope to receive advise from this list. I shudder to think of having to query MS, even if I got an answer it would be very murky and impossible to implement. Thanks in advance. Stephen P. Molnar, Ph.D. (614)312-7528 Skype: smolnar1
Re: Problem with Wallpaper
On 04/22/2021 09:09 AM, Dan Ritter wrote: Stephen P. Molnar wrote: I am running Buster/XFCE4 Desktop on an LG Model24EN33 LED Monitor. This morning, after being shut down over night , when I turned on the monitor it came up with the black wallpaper that I favor. After closing an application the portion of the screen that was covered was a light gray. Changing the wallpaper did not change the appearance of the screen. Sounds like xfdesktop is not running. Is it? -dsr- Exactly what it was. Everything is now back I can't thank you enough. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Problem with Wallpaper
I am running Buster/XFCE4 Desktop on an LG Model24EN33 LED Monitor. This morning, after being shut down over night , when I turned on the monitor it came up with the black wallpaper that I favor. After closing an application the portion of the screen that was covered was a light gray. Changing the wallpaper did not change the appearance of the screen. I don't have the faintest idea as to what is going on. Help. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Where Does Buster Store Packages with Synaptic Download packages files only Command
On 04/12/2021 02:49 PM, Dan Ritter wrote: Stephen P. Molnar wrote: I admit that this is probably a silly question, but Google has not been a friend. When I check Download packages only in Synaptic which directory is the destination? Doesn't matter whether you're using synaptic, aptitude, apt-get or apt: /var/cache/apt/archives -dsr- Many thanks. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Where Does Buster Store Packages with Synaptic Download packages files only Command
I admit that this is probably a silly question, but Google has not been a friend. When I check Download packages only in Synaptic which directory is the destination? Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Download Pages are, Locked??!???
Thanks for the reply. I'll just wait to see what happens. On 02/07/2021 09:51 AM, Sven Hartge wrote: Stephen P. Molnar wrote: Suddenly the download pages are forbidden? My guess is that this has to do with the Debian 10.8 point release ISO image preparation. S° -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Download Pages are, Locked??!???
Suddenly the download pages are forbidden? What is going on? -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: MacOS Big Sur balenaEtcher Bug
I decided I think it's best to purchase the new Librem 14 for Debian since it's built for Linux once I get another job that is. (unemployed) It's costly...$3,500-$4,000. On 1/12/21 5:49 PM, Andrew M.A. Cater wrote: On Mon, Jan 11, 2021 at 11:29:58AM -0700, Charles Curley wrote: On Mon, 11 Jan 2021 08:00:17 + "Andrew M.A. Cater" wrote: That image was for a limited subset of Intel based Macs some years ago - see various discussions elsewhere in this list. The AMD64 image should work for current Intel-based Macs. Thanks for that clarification. -- Does anybody read signatures any more? https://charlescurley.com https://charlescurley.com/blog/ One other thing that might be relevant: you're on the very latest iteration of MacOS. Few of us are guaranteed to use Macs necessarily: if your Mac uses behaviour/features in the new MacOS that we don't yet know, there may yet be things we need to learn. All the very best, as ever, Andy C.
MacOS Big Sur balenaEtcher Bug
Hello, I downloaded the debian-10.7.0-amd64-netinst.iso image from the home page on Big Sur. I tried to flash it with balenaEtcher and am running into problems. When the flash is complete in balenaEtcher, it says files cannot be read by the system and when I look at the size of the USB bootable it becomes like 2-3 MB and looks corrupted. Nevertheless, I booted into the debian installation and the interface does appear showing "Install Debian" although the screen is zoomed out really far. When I hit enter and it brings up the select language screen in the Debian installation, the screen is still zoomed out really far and the mouse or keyboard are unresponsive. Any thoughts or ideas? Configurations: Big Sur 11.1 Partition Map: MBR Mac OS Extended (Journaled) Thanks, Stephen
Re: Monitor Problem???
On 01/03/2021 11:39 AM, David Wright wrote: On Sun 03 Jan 2021 at 06:58:24 (-0500), Stephen P. Molnar wrote: My main computer runs Debian Buster and is displaying some unusual behavior. The monitor is blanking, without warning, at random times, and restoring the screen while I working. There is no warning, nor does the computer seem to be overheating (I continuously monitor the temperature). I rather suspect that it may be a hardware problem. I keep the software up to date. I am querying this group because I can't think of a more knowledgeable source. Any thoughts and suggestions of things that I might be able to test will be very welcome. What sort of connection do you have between the computer and the monitor? We have an HP Spectre that developed an unreliable HDMI socket within 27 months. The symptoms were as you described. Being a laptop, the cure was to run the display through the USB-C port with a hub (dual HDMI, ethernet, dual USB3). OTOH the worst I've experienced with VGA was flickering colour balance from dirty/worn pins. Cheers, David. The monitor is hardwired to a switch that, in turn, is hardwired to my main Linux Platform and an older Linux computer. Rebooting the system seems (at least, so far) to have remediated the problem. Many thanks for your reply. I knew I could rely on the mailing list. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Monitor Problem???
My main computer runs Debian Buster and is displaying some unusual behavior. The monitor is blanking, without warning, at random times, and restoring the screen while I working. There is no warning, nor does the computer seem to be overheating (I continuously monitor the temperature). I rather suspect that it may be a hardware problem. I keep the software up to date. I am querying this group because I can't think of a more knowledgeable source. Any thoughts and suggestions of things that I might be able to test will be very welcome. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Internal error: couldn't generate list of packages to download
On 09/27/2020 01:35 PM, Brian wrote: On Sun 27 Sep 2020 at 13:09:02 -0400, Stephen P. Molnar wrote: On 09/27/2020 12:44 PM, Brian wrote: On Sun 27 Sep 2020 at 11:01:42 -0400, Stephen P. Molnar wrote: I followed your suggestion, extracted the deb and copied the files to /opt/brother/scanner. However, sudo apt purge brscan4 I got: comp@AbNormal:~/Downloads/Brother/tmp$ sudo apt purge brscan4 [sudo] password for comp: Reading package lists... Done Building dependency tree Reading state information... Done E: The package brscan4 needs to be reinstalled, but I can't find an archive for it. Let's assume /opt/brother/scanner is a typo and have a glance at dpkg(1). reinstreq A package marked reinstreq is broken and requires reinstallation. These packages cannot be removed, unless forced with option --force-remove-reinstreq. And later in the manual: remove-reinstreq: Remove a package, even if it's broken and marked to require reinstallation. This may, for example, cause parts of the package to remain on the system, which will then be forgotten by dpkg. We could try removing the reinstall request status from the package with sudo dpkg --remove --force-remove-reinstreq brscan4 and then have a go at sudo dpkg -P brscan4 Halla...bloody...ulla! It worked!! Splendid! sudo apt update and sudo apt upgrade worked without a burp or any warnings or errors. If you ever need any molecular modeling done give me a hollar. That I can do without nearly as many problems. Npthing to do with your issue, but what is your Brother model? Happy to let you know: DCP-L2550DW I found out during the recent travail that Brother doesn't support Linux. I'm quite pleased with the printer. It replaced the last of a line of Inkjet Printers. The Brother line of printers was recommended to me by the proprietor of an Inkjet Cartridge Refill store. The replacement toner cartridge is reasonably priced, as long as you don't but the replacement for the Manufacturer. There's a company here in the US, Quikship Toner that has the Cartridge for under $30.00 (including shipping) Of course, I don't anything about the availability there in the UK. I can't t thank you enough for the solution to my problem. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Internal error: couldn't generate list of packages to download
On 09/27/2020 12:44 PM, Brian wrote: On Sun 27 Sep 2020 at 11:01:42 -0400, Stephen P. Molnar wrote: I followed your suggestion, extracted the deb and copied the files to /opt/brother/scanner. However, sudo apt purge brscan4 I got: comp@AbNormal:~/Downloads/Brother/tmp$ sudo apt purge brscan4 [sudo] password for comp: Reading package lists... Done Building dependency tree Reading state information... Done E: The package brscan4 needs to be reinstalled, but I can't find an archive for it. Let's assume /opt/brother/scanner is a typo and have a glance at dpkg(1). reinstreq A package marked reinstreq is broken and requires reinstallation. These packages cannot be removed, unless forced with option --force-remove-reinstreq. And later in the manual: remove-reinstreq: Remove a package, even if it's broken and marked to require reinstallation. This may, for example, cause parts of the package to remain on the system, which will then be forgotten by dpkg. We could try removing the reinstall request status from the package with sudo dpkg --remove --force-remove-reinstreq brscan4 and then have a go at sudo dpkg -P brscan4 Halla...bloody...ulla! It worked!! sudo apt update and sudo apt upgrade worked without a burp or any warnings or errors. If you ever need any molecular modeling done give me a hollar. That I can do without nearly as many problems. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Internal error: couldn't generate list of packages to download
On 09/27/2020 09:21 AM, Brian wrote: On Sun 27 Sep 2020 at 07:32:20 -0400, Stephen P. Molnar wrote: /opt/brother/scanner/brscan4/setupSaneScan4: not found /var/lib/dpkg/info/brscan4.postinst: 19: /var/lib/dpkg/info/brscan4.postinst: /opt/brother/scanner/brscan4/udev_config.sh: not found You have checked whether tose files exist or not? ls -l /opt/brother/scanner/brscan4/setupSaneScan4 ls -l /opt/brother/scanner/brscan4/udev_config.sh If not, you can cheat by extracting them from the the deb package, putting them where they are looked for and then running apt purge brscan4 Thank you for your response. Both files were missing. I followed your suggestion, extracted the deb and copied the files to /opt/brother/scanner. However, sudo apt purge brscan4 I got: comp@AbNormal:~/Downloads/Brother/tmp$ sudo apt purge brscan4 [sudo] password for comp: Reading package lists... Done Building dependency tree Reading state information... Done E: The package brscan4 needs to be reinstalled, but I can't find an archive for it. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Internal error: couldn't generate list of packages to download
On 09/26/2020 06:06 AM, The Wanderer wrote: On 2020-09-26 at 05:18, Stephen P. Molnar wrote: On 09/25/2020 08:53 PM, The Wanderer wrote: On 2020-09-25 at 07:48, Stephen P. Molnar wrote: This morning this resulted in the error The following partially installed packages will be configured: I somehow managed to miss noticing this line before. I think it may be the key to resolving the issue; see below. brscan4 As I think at least one other person has noted, this does not appear to be available in the Debian archives, at least not as far as I've managed to determine. That's correct. It is pat of the Brother Laser Printer driver package. Where did that come from? Did it (ever) have a repository configured, or was it downloaded as a standalone .deb? No packages will be installed, upgraded, or removed. 0 packages upgraded, 0 newly installed, 0 to remove and 0 not upgraded. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' After unpacking 0 B will be used. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' To my eye, this looks as if something is telling apt that version 0.4.8-1 is available somewhere, and the upgrade session is deciding that it needs to install that version, but then none of the configured sources include that version (and it's not already cached locally). What do $ apt-cache policy brscan4 $ apt-cache rdepends brscan4 say? Thank you for your reply. comp@AbNormal:~$ apt-cache policy brscan4 brscan4: Installed: 0.4.8-1 Candidate: 0.4.8-1 Version table: *** 0.4.8-1 100 100 /var/lib/dpkg/status That confirms (as I suppose was presumable) that there are no sources for *any* version of brscan4 in any configured repository. comp@AbNormal:~$ apt-cache rdepends E: No packages found Did you leave off the package name from this command? Suggestions? I think we still don't have enough information to be sure of what's going on, but... Do you still have the .deb for brscan4 0.4.8-1 around? If so, you could try any or all of: * Reinstall it with 'dpkg -i /path/to/brscan4_0.4.8-1.deb'. That should trigger the package to be configured automatically, and with that configuration complete, apt should theoretically no longer think that it needs to do anything with this package and therefore no longer see any need to download it. comp@AbNormal:~/Downloads/Brother$ sudo dpkg -i brscan4-0.4.8-1.amd64.deb (Reading database ... 421150 files and directories currently installed.) Preparing to unpack brscan4-0.4.8-1.amd64.deb ... /var/lib/dpkg/info/brscan4.prerm: 3: /var/lib/dpkg/info/brscan4.prerm: /opt/brother/scanner/brscan4/setupSaneScan4: not found /var/lib/dpkg/info/brscan4.prerm: 4: /var/lib/dpkg/info/brscan4.prerm: /opt/brother/scanner/brscan4/udev_uninstall.sh: not found rm: cannot remove '/opt/brother/scanner/brscan4/udev_uninstall.sh': No such file or directory dpkg: warning: old brscan4 package pre-removal script subprocess returned error exit status 1 dpkg: trying script from the new package instead ... /var/lib/dpkg/tmp.ci/prerm: 3: /var/lib/dpkg/tmp.ci/prerm: /opt/brother/scanner/brscan4/setupSaneScan4: not found /var/lib/dpkg/tmp.ci/prerm: 4: /var/lib/dpkg/tmp.ci/prerm: /opt/brother/scanner/brscan4/udev_uninstall.sh: not found rm: cannot remove '/opt/brother/scanner/brscan4/udev_uninstall.sh': No such file or directory dpkg: error processing archive brscan4-0.4.8-1.amd64.deb (--install): new brscan4 package pre-removal script subprocess returned error exit status 1 This software is based in part on the work of the Independent JPEG Group. /var/lib/dpkg/info/brscan4.postinst: 18: /var/lib/dpkg/info/brscan4.postinst: /opt/brother/scanner/brscan4/setupSaneScan4: not found /var/lib/dpkg/info/brscan4.postinst: 19: /var/lib/dpkg/info/brscan4.postinst: /opt/brother/scanner/brscan4/udev_config.sh: not found dpkg: error while cleaning up: installed brscan4 package post-installation script subprocess returned error exit status 127 Errors were encountered while processing: brscan4-0.4.8-1.amd64.deb comp@AbNormal:~/Downloads/Brother$ * Copy that .deb into /var/cache/apt/archives/ (if it's not already there), so that apt might notice that it doesn't need to download it because there's already a local copy. (This might need some other command to be run in between, but I couldn't say what just offhand.) I had already copied the .deb to that location. * Uninstall brscan4, run the upgrade, then install it again via the same reinstall command as suggested above. That both would let you proceed with whatever other package upgrades there might be, and should resolve the half-configured status. comp@AbNormal:~/Downloads/Brother$ sudo ./uninstaller_brscan4 [sudo] password for comp: dpkg: error processing package brscan4 (--purge): package is in a very bad inconsistent state; you should reinstall it before attempting a removal Errors were encountered while processing: brscan4 rm: cannot
Re: Internal error: couldn't generate list of packages to download
On 09/26/2020 06:06 AM, The Wanderer wrote: On 2020-09-26 at 05:18, Stephen P. Molnar wrote: On 09/25/2020 08:53 PM, The Wanderer wrote: On 2020-09-25 at 07:48, Stephen P. Molnar wrote: This morning this resulted in the error The following partially installed packages will be configured: I somehow managed to miss noticing this line before. I think it may be the key to resolving the issue; see below. brscan4 As I think at least one other person has noted, this does not appear to be available in the Debian archives, at least not as far as I've managed to determine. That's correct. It is pat of the Brother Laser Printer driver package. Where did that come from? Did it (ever) have a repository configured, or was it downloaded as a standalone .deb? No packages will be installed, upgraded, or removed. 0 packages upgraded, 0 newly installed, 0 to remove and 0 not upgraded. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' After unpacking 0 B will be used. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' To my eye, this looks as if something is telling apt that version 0.4.8-1 is available somewhere, and the upgrade session is deciding that it needs to install that version, but then none of the configured sources include that version (and it's not already cached locally). What do $ apt-cache policy brscan4 $ apt-cache rdepends brscan4 say? Thank you for your reply. comp@AbNormal:~$ apt-cache policy brscan4 brscan4: Installed: 0.4.8-1 Candidate: 0.4.8-1 Version table: *** 0.4.8-1 100 100 /var/lib/dpkg/status That confirms (as I suppose was presumable) that there are no sources for *any* version of brscan4 in any configured repository. comp@AbNormal:~$ apt-cache rdepends E: No packages found Did you leave off the package name from this command? Suggestions? I think we still don't have enough information to be sure of what's going on, but... Do you still have the .deb for brscan4 0.4.8-1 around? If so, you could try any or all of: * Reinstall it with 'dpkg -i /path/to/brscan4_0.4.8-1.deb'. That should trigger the package to be configured automatically, and with that configuration complete, apt should theoretically no longer think that it needs to do anything with this package and therefore no longer see any need to download it. * Copy that .deb into /var/cache/apt/archives/ (if it's not already there), so that apt might notice that it doesn't need to download it because there's already a local copy. (This might need some other command to be run in between, but I couldn't say what just offhand.) * Uninstall brscan4, run the upgrade, then install it again via the same reinstall command as suggested above. That both would let you proceed with whatever other package upgrades there might be, and should resolve the half-configured status. Thank you for your suggestions. You're correct, I did omit the file make.. Here's what happens: comp@AbNormal:~$ apt-cache policy brscan4 brscan4: Installed: 0.4.8-1 Candidate: 0.4.8-1 Version table: *** 0.4.8-1 100 100 /var/lib/dpkg/status comp@AbNormal:~$ apt-cache rdepends brscan4 brscan4 I have some other commitments today, but will try your suggestions as soon as possible. Reverse Depends: -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Internal error: couldn't generate list of packages to download
On 09/25/2020 08:53 PM, The Wanderer wrote: On 2020-09-25 at 07:48, Stephen P. Molnar wrote: I am running up-to-date Buster, unfortunately there seems to be a bit of a problem. Normally I run the update process several times a week with the command sudo apr update && sudo apt upgrade. ^ I'm presuming this is a pure mail-writing typo. Correct. This morning this resulted in the error The following partially installed packages will be configured: brscan4 As I think at least one other person has noted, this does not appear to be available in the Debian archives, at least not as far as I've managed to determine. That's correct. It is pat of the Brother Laser Printer driver package. No packages will be installed, upgraded, or removed. 0 packages upgraded, 0 newly installed, 0 to remove and 0 not upgraded. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' After unpacking 0 B will be used. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' To my eye, this looks as if something is telling apt that version 0.4.8-1 is available somewhere, and the upgrade session is deciding that it needs to install that version, but then none of the configured sources include that version (and it's not already cached locally). What do $ apt-cache policy brscan4 $ apt-cache rdepends brscan4 say? Thank you for your reply. comp@AbNormal:~$ apt-cache policy brscan4 brscan4: Installed: 0.4.8-1 Candidate: 0.4.8-1 Version table: *** 0.4.8-1 100 100 /var/lib/dpkg/status comp@AbNormal:~$ apt-cache rdepends E: No packages found Suggestions? -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Internal error: couldn't generate list of packages to download
On 09/25/2020 09:13 AM, Greg Wooledge wrote: On Fri, Sep 25, 2020 at 09:08:09AM -0400, Stephen P. Molnar wrote: Here is my edited sources.list: Your *what*?! What do you mean, "edited"? Do you mean, "here is a file that is not my sources.list, but some part of it may be similar, and you get to guess what the real one contains"? How is that helpful? How about: you post the ACTUAL sources.list file, plus any ACTUAL files under sources.list.d. Then, you post the ACTUAL command you are typing and its ACTUAL output. (At this point, the most likely scenario is either "my secret sources.list contains third-party repositories that are broken but I won't let you know that", or "some of the files in /var/lib/apt/lists/ have become corrupt". Good luck figuring out which one is true when the information needed to determine that is all kept from you.) Sorry, nonexistent proof reading. Here are the requested files sources.list: # deb cdrom:[Debian GNU/Linux 10.1.0 _Buster_ - Official amd64 DVD Binary-1 20190908-01:09]/ buster contrib main # deb cdrom:[Debian GNU/Linux 10.1.0 _Buster_ - Official amd64 DVD Binary-1 20190908-01:09]/ buster contrib main deb http://deb.debian.org/debian/ buster main non-free contrib deb-src http://deb.debian.org/debian/ buster main non-free contrib deb http://security.debian.org/debian-security/ buster/updates main contrib non-free deb-src http://security.debian.org/debian-security/ buster/updates main contrib non-free # buster-updates, previously known as 'volatile' deb http://deb.debian.org/debian/ buster-updates main contrib non-free deb-src http://deb.debian.org/debian/ buster-updates non-free contrib main Contents of /etc/apt/sourceslist.d: dropbox.list google-chrome.list google-earth-pro.list mendeleydesktop.list skype-stable.list vscode.list -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Internal error: couldn't generate list of packages to download
On 09/25/2020 08:49 AM, Dan Ritter wrote: Stephen P. Molnar wrote: I am running up-to-date Buster, unfortunately there seems to be a bit of a problem. Normally I run the update process several times a week with the command sudo apr update && sudo apt upgrade. This morning this resulted in the error The following partially installed packages will be configured: brscan4 No packages will be installed, upgraded, or removed. 0 packages upgraded, 0 newly installed, 0 to remove and 0 not upgraded. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' After unpacking 0 B will be used. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' E: Internal error: couldn't generate list of packages to download E: Perhaps the package lists are out of date, please try 'aptitude update' (or equivalent); otherwise some packages or versions are not available from the current repository sources I reinstalled the Brother printer drivers, apparently barscan4 was not included. I contgaced Brother tech support, but was told that they did not support Linux. I tried: sudo mv /var/lib/apt/lists /var/lib/apt/lists.old sudo apt-get clean sudo apt-get update This resulted in a long list of get: (ellipses)followed by my user prompt. Unfortunately, update generated the same errors. At this point I don't have the faintest idea as to how to proceed. Pointers towards a solution to the problem will be much appreciated. apt-get update fetches package lists apt-get upgrade fetches and install packages In this case, I think you have a problem with update, which leads to the problem with upgrade. Check your /etc/apt/sources.list and entries in /etc/apt/sources.list.d/ Something probably is not responding. There are mirrors for most repos, so pick different mirrors, or use http://deb.debian.org/debian/ -dsr- Many thanks for the quick response. Here is my edited sources.list: deb cdrom:[Debian GNU/Linux 10.1.0 _Buster_ - Official amd64 DVD Binary-1 20190908-01:09]/ buster contrib main # deb cdrom:[Debian GNU/Linux 10.1.0 _Buster_ - Official amd64 DVD Binary-1 20190908-01:09]/ buster contrib main deb http://deb.debian.org/debian/ buster main non-free contrib deb-src http://deb.debian.org/debian/ buster main non-free contrib deb http://security.debian.org/debian-security/ buster/updates main contrib non-free deb-src http://security.debian.org/debian-security/ buster/updates main contrib non-free # buster-updates, previously known as 'volatile' deb http://deb.debian.org/debian/ buster-updates main contrib non-free deb-src http://deb.debian.org/debian/ buster-updates non-free contrib main Unfortunately, I got the same error list. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Internal error: couldn't generate list of packages to download
I am running up-to-date Buster, unfortunately there seems to be a bit of a problem. Normally I run the update process several times a week with the command sudo apr update && sudo apt upgrade. This morning this resulted in the error The following partially installed packages will be configured: brscan4 No packages will be installed, upgraded, or removed. 0 packages upgraded, 0 newly installed, 0 to remove and 0 not upgraded. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' After unpacking 0 B will be used. E: Can't find a source to download version '0.4.8-1' of 'brscan4:amd64' E: Internal error: couldn't generate list of packages to download E: Perhaps the package lists are out of date, please try 'aptitude update' (or equivalent); otherwise some packages or versions are not available from the current repository sources I reinstalled the Brother printer drivers, apparently barscan4 was not included. I contgaced Brother tech support, but was told that they did not support Linux. I tried: sudo mv /var/lib/apt/lists /var/lib/apt/lists.old sudo apt-get clean sudo apt-get update This resulted in a long list of get: (ellipses)followed by my user prompt. Unfortunately, update generated the same errors. At this point I don't have the faintest idea as to how to proceed. Pointers towards a solution to the problem will be much appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Question about nvidea-driver
Many thanks for the replies. I checked, and the nouveau driver has been blacklisted. On 07/16/2020 11:09 AM, Brad Rogers wrote: On Thu, 16 Jul 2020 09:18:54 -0400 "Stephen P. Molnar" wrote: Hello Stephen, system? Also, is it possible to direct the installer to use the nvidia-driver rather the nouveau package. Difficult; There are multiple versions of the nvidia driver available. What you need/want to install depends on various factors, not least of which is the model of card being used as some cards will require one of the legacy drivers, rather than the current driver. Adding the relevant tests to the installer for what is a fairly small number of people installing Debian with nvidia GFX cards is probably not worth the effort. Further to what Georgi wrote; The nvidia driver works with the nouveau driver still in place (i.e. the nouveau driver gets blacklisted). Of course, you can still remove the nouveau driver if you wish to do so. Personally, I never bothered - disk drive space is cheap these days. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Question about nvidea-driver
I am running Buster on my Linux Platform. The installer selected the xserver-xorg-videau-nouveau, libdrm-nouveau2 and libdrm-nouveau22:i386 packages. However, I have a GK208 [GeForce GT 710B] (rev a1) card on the platform and have installed the nvidia-driver package. Everything seems to work without any problems. My question is can I remove the nouveau package without breaking my system? Also, is it possible to direct the installer to use the nvidia-driver rather the nouveau package. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
How To Permanently Add-to a Users PATH Statement in the Bash Shell
The Subject line is the problem with my Debian Buster platform. Now from Google I see that there has been a change in the way Debian handles this problem. My user path statement is: comp@AbNormal:~$ echo $PATH /usr/local/bin:/usr/bin:/bin:/usr/local/games:/usr/games Now I have a number of applications that have multiple executable in the app /bin subdirectory. Hence the need to add to the users PATH statement As an example I have: /home/comp/Apps/ADFRsuite-1.0/bin which I would like to add to the PATH statement and: export PATH=$PATH:'/home/comp/Apps/ADFRsuite-1.0/bin' This works unless I open a new Terminal, in which case it is no longer in the PATH. How do I make the addition persistent? Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Fw: Monitor Font During Boot
On 06/13/2020 03:52 PM, Matthew Campbell wrote: Use the setfont command to change your console font on the fly. Look in /usr/share/consolefonts for available choices and try them out. I use setfont /usr/share/consolefonts/Uni3-TerminusBold32x16.psf.gz systemd sets it while booting too. I haven't figured that part out yet. It's a systemd related service. name=Matthew%20Campbell=trenix25%40pm.me Original Message On Jun 13, 2020, 5:41 AM, Stephen P. Molnar < s.mol...@sbcglobal.net> wrote: I have a LG Flatron 24EN33TW-B LED LCD Monitor on my Debian Buster Linux platform. I have just changed the screen driver from nouveau to nvidia by running 'sudo apt install nvidia-driver. Before the change of drivers the initial font on the screen on booting the system was a large, ugly font, during the second portion of the boot process the font changed to a smaller, better looking font. After the change the r\font remained large and ugly until the login screen when the font becomes the same as the Desktop. Other than this I have had no problems with the operation of the computer. My question is what happen, and more importantly, should I be worried about impending doom? Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net <http://www.molecular-modeling.net> 614.312.7528 (c) Skype: smolnar1 Thanks for the reply. I'll see what happens. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Monitor Font During Boot
I have a LG Flatron 24EN33TW-B LED LCD Monitor on my Debian Buster Linux platform. I have just changed the screen driver from nouveau to nvidia by running 'sudo apt install nvidia-driver. Before the change of drivers the initial font on the screen on booting the system was a large, ugly font, during the second portion of the boot process the font changed to a smaller, better looking font. After the change the r\font remained large and ugly until the login screen when the font becomes the same as the Desktop. Other than this I have had no problems with the operation of the computer. My question is what happen, and more importantly, should I be worried about impending doom? Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: User Forgets Aliases
On 12/16/2019 08:30 AM, Greg Wooledge wrote: On Sat, Dec 14, 2019 at 04:27:39AM -0500, Stephen P. Molnar wrote: I find that I have to source the .bashrc use the aliases. My guess is that you: 1) created a ~/.bash_profile and forgot to tell it to source ~/.bashrc; or 2) altered your ~/.profile in such a way that it no longer sources ~/.bashrc; or 3) somehow are no longer using bash as your shell when you launch a terminal, or when you login to a shell session. In any case, if your shell is bash, your PROFILE (which is one of the three files ~/.bash_profile or ~/.bash_login or ~/.profile) must source or dot in ~/.bashrc. If none of these shotgun guesses match your problem, then please provide details. What version of Debian, how do you login, how do you get to an interactive shell. As a matter of fact, there was no .bash_profile. I created on and transferred all of my alias statement to that and not is fine. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
User Forgets Aliases
For reasons unknown to me, my user seems to have forgotten aliases in .bashrc! I find that I have to source the .bashrc use the aliases. This is rather inconvenient as I have quite a few aliases that I use all of the time. Does anyone haw any idea as to what might be going on here? Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Orphaned Inode Problem
Well, as I said, I didn't know if it meant anything. On 11/20/2019 11:01 AM, Reco wrote: Hi. On Wed, Nov 20, 2019 at 09:19:30AM -0500, Stephen P. Molnar wrote: I don't know what the significance might be, but I have installed Buster in an Oracle VM along with the software that hangs, and it works. Countless things could be significant here. If you remove a real hardware from the equation, then you remove whole classes of problems. Reco -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Orphaned Inode Problem
I don't know what the significance might be, but I have installed Buster in an Oracle VM along with the software that hangs, and it works. On 11/19/2019 02:39 PM, Reco wrote: Hi. On Tue, Nov 19, 2019 at 02:31:59PM -0500, Stephen P. Molnar wrote: On Mon, Nov 18, 2019 at 02:06:48PM -0500, Stephen P. Molnar wrote: he problem is that the program hangs and the system will not recognized the keyboard, although, according to gKrellM the system is still operating. The only solution seems to be to reboot the system. The contents of /var/log/messages at the time of the hang will definitely help to pinpoint the issue. And maybe the xorg.log, but it's non-trivial to extract something useful from it - you have to wait for the hang, reboot, and locate Xorg.0.log.old file. I've attached the dmesg file. The platfrom was locked up and i had to reboot the system to get the file. I wrote "/var/log/messages", not "dmesg" for a reason. And that reason is - dmesg shows current kernel messages (i.e. - after the reboot), and they are useless for determining the cause of the hang. /var/log/messages can be large, but I do not ask all of it. A part that precedes the hang is all that needed. For the archives, the last line in dmesg output is: [ 23.210107] IPv6: ADDRCONF(NETDEV_UP): docker0: link is not ready And the dmesg itself shows more-or-less normal boot process and uptime of 23 seconds. Reco -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Orphaned Inode Problem
On 11/18/2019 02:17 PM, Reco wrote: Hi. On Mon, Nov 18, 2019 at 02:06:48PM -0500, Stephen P. Molnar wrote: he problem is that the program hangs and the system will not recognized the keyboard, although, according to gKrellM the system is still operating. The only solution seems to be to reboot the system. The contents of /var/log/messages at the time of the hang will definitely help to pinpoint the issue. And maybe the xorg.log, but it's non-trivial to extract something useful from it - you have to wait for the hang, reboot, and locate Xorg.0.log.old file. I have no idea what the cause may be or what a solution might be. Google is no help (al least, nothing that I can understand). A kernel panic or OOPS comes to mind first. That's very broad class of the problem, to say the least, hence the need of kernel logs. Xorg hang is the second possible option. AMD hardware is somewhat problematic here. Barring above - an overheat is the third possible scenario here. In short, Google (or any other search engine) can offer little help here - you have to know what to search. Reco I've attached the dmesg file. The platfrom was locked up and i had to reboot the system to get the file. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1 [0.00] Linux version 4.19.0-6-amd64 (debian-ker...@lists.debian.org) (gcc version 8.3.0 (Debian 8.3.0-6)) #1 SMP Debian 4.19.67-2+deb10u2 (2019-11-11) [0.00] Command line: BOOT_IMAGE=/boot/vmlinuz-4.19.0-6-amd64 root=UUID=3b5d6f38-b208-431a-842c-8a44f7c26cec ro quiet [0.00] random: get_random_u32 called from bsp_init_amd+0x20b/0x2b0 with crng_init=0 [0.00] x86/fpu: Supporting XSAVE feature 0x001: 'x87 floating point registers' [0.00] x86/fpu: Supporting XSAVE feature 0x002: 'SSE registers' [0.00] x86/fpu: Supporting XSAVE feature 0x004: 'AVX registers' [0.00] x86/fpu: xstate_offset[2]: 576, xstate_sizes[2]: 256 [0.00] x86/fpu: Enabled xstate features 0x7, context size is 832 bytes, using 'standard' format. [0.00] BIOS-provided physical RAM map: [0.00] BIOS-e820: [mem 0x-0x0009e7ff] usable [0.00] BIOS-e820: [mem 0x0009e800-0x0009] reserved [0.00] BIOS-e820: [mem 0x000e-0x000f] reserved [0.00] BIOS-e820: [mem 0x0010-0xda580fff] usable [0.00] BIOS-e820: [mem 0xda581000-0xda85cfff] reserved [0.00] BIOS-e820: [mem 0xda85d000-0xda86cfff] ACPI data [0.00] BIOS-e820: [mem 0xda86d000-0xdb956fff] ACPI NVS [0.00] BIOS-e820: [mem 0xdb957000-0xdca33fff] reserved [0.00] BIOS-e820: [mem 0xdca34000-0xdca34fff] usable [0.00] BIOS-e820: [mem 0xdca35000-0xdcc3afff] ACPI NVS [0.00] BIOS-e820: [mem 0xdcc3b000-0xdd082fff] usable [0.00] BIOS-e820: [mem 0xdd083000-0xdd7f3fff] reserved [0.00] BIOS-e820: [mem 0xdd7f4000-0xdd7f] usable [0.00] BIOS-e820: [mem 0xfec0-0xfec00fff] reserved [0.00] BIOS-e820: [mem 0xfec1-0xfec10fff] reserved [0.00] BIOS-e820: [mem 0xfec2-0xfec20fff] reserved [0.00] BIOS-e820: [mem 0xfed0-0xfed00fff] reserved [0.00] BIOS-e820: [mem 0xfed61000-0xfed70fff] reserved [0.00] BIOS-e820: [mem 0xfed8-0xfed8] reserved [0.00] BIOS-e820: [mem 0xfef0-0x] reserved [0.00] BIOS-e820: [mem 0x00011000-0x00021eff] usable [0.00] NX (Execute Disable) protection: active [0.00] SMBIOS 2.7 present. [0.00] DMI: To be filled by O.E.M. To be filled by O.E.M./M5A97 R2.0, BIOS 2603 06/26/2015 [0.00] e820: update [mem 0x-0x0fff] usable ==> reserved [0.00] e820: remove [mem 0x000a-0x000f] usable [0.00] AGP: No AGP bridge found [0.00] last_pfn = 0x21f000 max_arch_pfn = 0x4 [0.00] MTRR default type: uncachable [0.00] MTRR fixed ranges enabled: [0.00] 0-9 write-back [0.00] A-B write-through [0.00] C-CEFFF write-protect [0.00] CF000-EBFFF uncachable [0.00] EC000-F write-protect [0.00] MTRR variable ranges enabled: [0.00] 0 base mask 8000 write-back [0.00] 1 base 8000 mask C000 write-back [0.00] 2 base C000 mask E000 write-back [0.00] 3 base DD80 mask FF80 uncachable [0.00] 4 base DE00 mask FE00 uncachable [0.00] 5 disabled [0.00] 6 disabled [0.00] 7 disabled [0.000
Orphaned Inode Problem
I am running Stretch on my Linux platform. The CPU is an AMD FX-8320 Eight-Core Processor on an ASUSTeK M5A97 R2.0 Motherboard with 8GB Ram. I have started having orphaned inodes when I run a major piece of software in my research program. he problem is that the program hangs and the system will not recognized the keyboard, although, according to gKrellM the system is still operating. The only solution seems to be to reboot the system. I have no idea what the cause may be or what a solution might be. Google is no help (al least, nothing that I can understand). Help will be much appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Psensor Does Not Auto-range Temperature
When I run Psensor to monitor the CPU temperature of my Buster platform, it fails to auto-range the temperature. I get the same error messages, regardless if I open Psensor as either a user or root. comp@AbNormal:~$ sudo -s psensor [sudo] password for comp: [2019-11-02T10:25:17] [ERR] nvctrl: Failed to retrieve NVIDIA information. (psensor:24553): Gdk-CRITICAL **: 06:25:18.169: gdk_window_thaw_toplevel_updates: assertion 'window->update_and_descendants_freeze_count > 0' failed Psensor worked correctly in v-9.x. Please advise. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Some Bash Alias Statements Work, Others Don't.
Thanks for the note. Please see my comments interspaced below: On 10/29/2019 08:50 AM, The Wanderer wrote: On 2019-10-29 at 07:14, Stephen P. Molnar wrote: The subject line tells it all!? Debian Stretch (64bit). (A bit more literally than might have been expected. I've trimmed the Subject line back down, as it contained a verbatim copy of the entire message body except for the newlines being replaced by ',,'. That was purely ridiculous; if you don't know how how it happened, please look into it, and if you did it on purpose, please keep Subject lines to a vaguely reasonable length in the future.) Yes, I do know. A bit of in attention on my part; Sorry about that Without warning, or any other indications, some of the alias statements in my user .bashrc are no longer working!. The strange thing is that some still are working. Also, if I enter the complete path to an executable whose alias is NOT working, the executable works Reentering the alias statement in .bashrc does not restore the function. If I enter the alias statement in a terminal the alias works for that session of the terminal. Can you give some examples of aliases which work and which don't? By which I mean, paste in the alias-definition line for each one. At first blush from the given description, my guess would be that bash is now for some reason not actually reading your .bashrc, but is instead getting its alias definitions from somewhere else, which happens to include some but not all of the definitions your own file specifies. If that's correct, then the aliases which work will be those defined in the other file, and the most likely ones to keep working are generic ones like those defined in /etc/skel/.bashrc. One way to help confirm or refute this would be to add a non-silent command to your .bashrc - an echo statement, or an invocation of fortune, or something along those lines; preferably one prior to the alias definitions, and another after them. If that command's output appears in a suitably-invoked new shell, then this is the wrong avenue; if it doesn't, then you might want to start hunting for other files which contain alias definitions, and try to find out why bash is looking there instead of where you expect. The problem, was that, somehow, the permission s of the directory containing the executable were changed to root root. I should have checked that in the beginning and saved the band with. Please accept my apologies. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Some Bash Alias Statements Work, Others Don't.The subject line tells it all!? Debian Stretch (64bit).,,Without warning, or any other indications, some of the alias statements in my user .bashrc ar
Thanks for the reply. There doesn't seem to be any such demarcation. On 10/29/2019 07:24 AM, Dan Purgert wrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA256 Stephen P. Molnar wrote: The subject line tells it all!? Debian Stretch (64bit). Without warning, or any other indications, some of the alias statements in my user .bashrc are no longer working!. The strange thing is that some still are working. Also, if I enter the complete path to an executable whose alias is NOT working, the executable works Reentering the alias statement in .bashrc does not restore the function. Going out on a limb here -- is there specific point in your alias list where things stop working (e.g. the 5th alias is OK, everything after stops), or is it that aliases 1,3,7,and 9 all work, but 2,4,5,6,8 are non-working? -BEGIN PGP SIGNATURE- iQEzBAEBCAAdFiEEBcqaUD8uEzVNxUrujhHd8xJ5ooEFAl24IXAACgkQjhHd8xJ5 ooEe4Qf+IrPAmTwjIm3Vd5kFJvLg1W2YR5spP3SJfaYqNip42MiYK+uHCDjWJhhb uV9giwL2mjAkdLHCjm49crTEO1UBJuoRyj+hfZ1+ZS2jDZtsz3pLocTNHRTko4/z 8mb1sW8ddI5xt9VdRow+5/FlPOkqd39HnicKXLCGQ7hO+/px9LQ7dGyyFhdcmd/h mAnCFfZKkOAOI2l3SCPE3bAnrJSgEg/+VLk1ZzOTvQ3Xu2bxdOO2qKT+gdJP7nr3 RW/PCS188GB9rV+mllKkEmzEymtvs3MjgLF0x+CTZY8zIpQZ8K9y6vxOsmH/czGe tMy2VsTDXN4LScu5x2/ahpqqqaQRvQ== =crfS -END PGP SIGNATURE- -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Some Bash Alias Statements Work, Others Don't.The subject line tells it all!? Debian Stretch (64bit).,,Without warning, or any other indications, some of the alias statements in my user .bashrc are no
The subject line tells it all!? Debian Stretch (64bit). Without warning, or any other indications, some of the alias statements in my user .bashrc are no longer working!. The strange thing is that some still are working. Also, if I enter the complete path to an executable whose alias is NOT working, the executable works Reentering the alias statement in .bashrc does not restore the function. If I enter the alias statement in a terminal the alias works for that session of the terminal. The only thing that Google has yielded is when all of the alias statements stop working. This is inconvenient and very annoying. AS solution to the problem will be much appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Firefox Seems to Have a Mind of It's Own
Firefox Quantum 70.0(64-bit) on Buster Wants The browser always to use Bing for searches even though I've removed it from the list of search engines and selected Google as the default.. Has anyone else noticed this behavior? -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Xfce4-Terminal Prompt is Changed by ANACONDA
I have just installed Anaconda 19-10 on my up to date Buster platform as user. For some reason the Xcfc4-Termial is: (base) comp@AbNormal:~$ rather than: comp@AbNormal:~$ which is what the installer created. What is going on here, and how do I get the prompt back? The root prompt is unchanged. Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: Problem with apt update
On 10/20/2019 10:41 AM, Reco wrote: Hi. On Sun, Oct 20, 2019 at 10:25:27AM -0400, Stephen P. Molnar wrote: I know the the command worked because I can access -i386 applications. However, when I run: comp@AbNormal:~$ sudo -s apt update none of the Debian i386 repositories are listed. Why is this the case? If the mirror has not changed its contents since your last update, apt will only show *checking* Release files, but won't show downloading new index files. For instance, these are shown without an architecture: Get:1 http://security.debian.org buster/updates InRelease [39.1 kB] Hit:2 http://ftp.debian.org/debian buster InRelease Get:3 http://ftp.debian.org/debian buster-updates InRelease [49.3 kB] Get:4 http://ftp.debian.org/debian buster-backports InRelease [46.7 kB] But these ones are shown with the one: Ign:6 http://security.debian.org buster/updates/main arm64 Packages Ign:7 http://security.debian.org buster/updates/main amd64 Packages .. Ign:10 http://ftp.debian.org/debian buster-updates/main amd64 Packages.diff/Index Ign:11 http://ftp.debian.org/debian buster-updates/main arm64 Packages.diff/Index Also, if you need to check your multiarch status, the following does it for me (any meaningful library should do it): apt policy libc6:* Reco Thanks for the reply. your suggestion shows that the i386 files are, indeed, there. My main concern is the corollary to Murphy's Law - 'if one thing is wrong many others are probably at risk also'. Happily, that doesn't seem to be the case, at least so far!. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Problem with apt update
I have just reinstalled Buster on my main computer. While I was setting up my desktop I ran: sudo -s dpkg --add-architecture i386 without any warning or error messages. I know the the command worked because I can access -i386 applications. However, when I run: comp@AbNormal:~$ sudo -s apt update Hit:1 http://mirror.cc.columbia.edu/debian buster InRelease Hit:2 http://mirror.cc.columbia.edu/debian buster-updates InRelease Ign:3 http://dl.google.com/linux/earth/deb stable InRelease Hit:4 http://dl.google.com/linux/earth/deb stable Release Hit:5 http://security.debian.org/debian-security buster/updates InRelease Reading package lists... Done Building dependency tree Reading state information... Done All packages are up to date. N: Skipping acquire of configured file 'main/binary-i386/Packages' as repository 'http://dl.google.com/linux/earth/deb stable InRelease' doesn't support architecture 'i386' none of the Debian i386 repositories are listed. Why is this the case? Thanks in advance. -- Stephen P. Molnar, Ph.D. www.molecular-modeling.net 614.312.7528 (c) Skype: smolnar1
Re: [Tutor] NumPy Generates ValueError: Some errors were detected ! Line #9 (got 42 columns instead of 1)
On 09/27/2019 09:55 AM, Stephen P. Molnar wrote:
On 09/27/2019 09:28 AM, Mats Wichmann wrote:
On 9/27/19 5:47 AM, Stephen P. Molnar wrote:
0
I am writing code to combine text files and I have encountered an
error that I am having trouble solving. Google is no help.
The code is:
|#!/usr/bin/env python3# -*- coding: utf-8 -*-""" Created on Thu Sep
26 09:51:55 2019 @author: comp """importnumpy asnp NAME
=input("Enter Molecule ID: ")NAME_IN =NAME+'_apo-1acl.RMSD'DATA
=[]DATA =np.genfromtxt(NAME_IN,skip_header=8,dtype=None)|
The text file is:
|RMSD TABLE __
_ ||Rank|Sub-|Run|Binding|Cluster|Reference|Grep|Rank||Energy|RMSD
|RMSD
|Pattern_|__|__|___|_|_|___
118-7.230.0093.07RANKING 129-6.791.3992.64RANKING
2116-7.180.0093.19RANKING 312-6.930.0093.38RANKING
3217-6.840.2393.45RANKING 4115-6.550.0091.83RANKING
427-6.340.3391.77RANKING 515-6.410.0093.05RANKING
613-6.360.0092.84RANKING 6210-6.280.4792.92RANKING
636-6.270.4392.82RANKING 6418-6.250.3292.88RANKING
6513-6.240.9692.75RANKING 661-6.240.8792.60RANKING
6714-6.210.5192.90RANKING 6811-6.140.9892.78RANKING
6920-6.110.7192.67RANKING 61019-6.011.3693.00RANKING
7112-6.300.0093.28RANKING 814-5.850.0092.97RANKING
___|
and the error is:
|runfile('/home/comp/Apps/Models/1-PhosphorusLigands/CombinedLigands/MOL/Docking/Results/RMSDTable/CombineRMSDFiles.py')
Enter Molecule ID: 13-7 13-7_apo-1acl.RMSD Traceback (most recent
call last): File
"/home/comp/Apps/Models/1-PhosphorusLigands/CombinedLigands/MOL/Docking/Results/RMSDTable/CombineRMSDFiles.py",
line 15, in DATA = np.genfromtxt(NAME_IN, dtype=None,
skip_header=8) File
"/home/comp/Apps/Miniconda3/lib/python3.7/site-packages/numpy/lib/npyio.py",
line 2075, in genfromtxt raise ValueError(errmsg) ValueError: Some
errors were detected ! Line #29 (got 1 columns instead of 7)|
At this point, I'm not even sure how to ask the question.
Thanks in advance.
your posting has come across mangled, seemingly spaces have been
stripped. But trying to disentangle it:
"...pyio.py", line 2075, in genfromtxt
raise ValueError(errmsg)
ValueError: Some errors were detected ! Line #29 (got 1 columns
instead of 7)|
and in your data you have lines which are clearly not seven columns.
You've done skip_header=8 and it doesn't look here that's eight lines
in the data pasted, but maybe that's due to whatever happened to the
pasted data between the source and the email. It looks at the very
least like you should use a skip_footer keyword as well since you
show a footer line. Beyond that it's really hard to tell as the data
portion of the table looks like it has no separators...
___
Tutor maillist - tu...@python.org
To unsubscribe or change subscription options:
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Sorry about the mangled files.
I put both the python script and the data file in my Dropbox account.
Here are the URL's:
https://www.dropbox.com/s/aattr8qnjwd8b8e/13-7a_apo-1acl.RMSD?dl=0
https://www.dropbox.com/s/aattr8qnjwd8b8e/13-7a_apo-1acl.RMSD?dl=0
Oh, dear. Just noticed my mistake.
Here are the correct URL's:
Data\ File:
https://www.dropbox.com/s/aattr8qnjwd8b8e/13-7a_apo-1acl.RMSD?dl=0
Python Script:
https://www.dropbox.com/s/ni3pk0342q7o0qz/CombineRMSDFiles.py?dl=0
--
Stephen P. Molnar, Ph.D.Life is a fuzzy set
http://www.Molecular-Modeling.net Multivariate and stochastic
614.312.7528 (c)
Skype: smolnar1
Re: [Tutor] NumPy Generates ValueError: Some errors were detected ! Line #9 (got 42 columns instead of 1)
On 09/27/2019 09:28 AM, Mats Wichmann wrote:
On 9/27/19 5:47 AM, Stephen P. Molnar wrote:
0
I am writing code to combine text files and I have encountered an
error that I am having trouble solving. Google is no help.
The code is:
|#!/usr/bin/env python3# -*- coding: utf-8 -*-""" Created on Thu Sep
26 09:51:55 2019 @author: comp """importnumpy asnp NAME =input("Enter
Molecule ID: ")NAME_IN =NAME+'_apo-1acl.RMSD'DATA =[]DATA
=np.genfromtxt(NAME_IN,skip_header=8,dtype=None)|
The text file is:
|RMSD TABLE __
_
||Rank|Sub-|Run|Binding|Cluster|Reference|Grep|Rank||Energy|RMSD
|RMSD
|Pattern_|__|__|___|_|_|___
118-7.230.0093.07RANKING 129-6.791.3992.64RANKING
2116-7.180.0093.19RANKING 312-6.930.0093.38RANKING
3217-6.840.2393.45RANKING 4115-6.550.0091.83RANKING
427-6.340.3391.77RANKING 515-6.410.0093.05RANKING
613-6.360.0092.84RANKING 6210-6.280.4792.92RANKING
636-6.270.4392.82RANKING 6418-6.250.3292.88RANKING
6513-6.240.9692.75RANKING 661-6.240.8792.60RANKING
6714-6.210.5192.90RANKING 6811-6.140.9892.78RANKING
6920-6.110.7192.67RANKING 61019-6.011.3693.00RANKING
7112-6.300.0093.28RANKING 814-5.850.0092.97RANKING
___|
and the error is:
|runfile('/home/comp/Apps/Models/1-PhosphorusLigands/CombinedLigands/MOL/Docking/Results/RMSDTable/CombineRMSDFiles.py')
Enter Molecule ID: 13-7 13-7_apo-1acl.RMSD Traceback (most recent
call last): File
"/home/comp/Apps/Models/1-PhosphorusLigands/CombinedLigands/MOL/Docking/Results/RMSDTable/CombineRMSDFiles.py",
line 15, in DATA = np.genfromtxt(NAME_IN, dtype=None,
skip_header=8) File
"/home/comp/Apps/Miniconda3/lib/python3.7/site-packages/numpy/lib/npyio.py",
line 2075, in genfromtxt raise ValueError(errmsg) ValueError: Some
errors were detected ! Line #29 (got 1 columns instead of 7)|
At this point, I'm not even sure how to ask the question.
Thanks in advance.
your posting has come across mangled, seemingly spaces have been
stripped. But trying to disentangle it:
"...pyio.py", line 2075, in genfromtxt
raise ValueError(errmsg)
ValueError: Some errors were detected ! Line #29 (got 1 columns
instead of 7)|
and in your data you have lines which are clearly not seven columns.
You've done skip_header=8 and it doesn't look here that's eight lines
in the data pasted, but maybe that's due to whatever happened to the
pasted data between the source and the email. It looks at the very
least like you should use a skip_footer keyword as well since you show
a footer line. Beyond that it's really hard to tell as the data
portion of the table looks like it has no separators...
___
Tutor maillist - tu...@python.org
To unsubscribe or change subscription options:
https://mail.python.org/mailman/listinfo/tutor
Sorry about the mangled files.
I put both the python script and the data file in my Dropbox account.
Here are the URL's:
https://www.dropbox.com/s/aattr8qnjwd8b8e/13-7a_apo-1acl.RMSD?dl=0
https://www.dropbox.com/s/aattr8qnjwd8b8e/13-7a_apo-1acl.RMSD?dl=0
--
Stephen P. Molnar, Ph.D.Life is a fuzzy set
http://www.Molecular-Modeling.net Multivariate and stochastic
614.312.7528 (c)
Skype: smolnar1
Re: I support the founder of FreeSoftware
On 09/20/2019 10:02 AM, Paul Sutton wrote: On 20/09/2019 14:48, Stefan Monnier wrote: Donald Trump will go down in history as the greatest President in the last 100 years, maybe more. I guess I could live with that, but only if he goes down quickly. Stefan Donald trump promised to bring jobs back to the US, cut regulation. He has done that, if people judge him on his performance alone he has done pretty much what he said he would. Not many politicians can boast that,. The problem is it is HOW he is done this and, the cost to the environment, international relations, how the US is viewed in the world, trade etc. The constant trade wars with China may look big at the political level, but I think it is the farmers and consumers who get hit hardest. Paul Finally we are seeing some semblance of I don't know what. Please take this nonsensical thread someplace else and stop negating the intent of this mailing list. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Re: OT: AI
On 08/26/2019 10:42 AM, mick crane wrote: On 2019-08-26 15:35, rhkra...@gmail.com wrote: On Monday, August 26, 2019 09:46:40 AM Dan Clery wrote: I've seen things you people wouldn't believe... I'm interested. (We may have to move the discussion off list, but I'd prefer not to.) He means starships on fire off the belt of Orion Please do. Stop wasting bandwidth. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Psensor Problem in Buster
Since upgrading to Buster I find that Psensor will auto-range the CPU Temperature if I run it as root. I would presume, hopefully correctly, that this is a permissions problem. Both psensor and sensors have the permissions of -rwxr-xr-x. My question is how can I get sensors to auto-range when running as a user? Thanks in advance. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Re: Strange Bash Script Problem
On 08/12/2019 09:39 AM, Greg Wooledge wrote:
On Sun, Aug 11, 2019 at 02:10:06PM -0400, Stephen P. Molnar wrote:
Thanks to all that shared their expertise.
#!/bin/bash
while IFS= read -r d
do
cd "${d}_apo-3k9b"
echo "${d}_apo-3k9b"
echo "${d}_apo-3k9b.dpf"
/home/comp/Apps/Autodock/autodock4 -p "${d}_apo-3k9b.dpf" -l
"${d}_apo-3k9b.dlg"
cd ..
done
There's still one more problem you want to fix: the exit status of cd
isn't being checked. If the cd fails, your script still continues on
to run the two echo commands and the autodock4 command. I don't know
what autodock4 does, but running it in the wrong directory is probably
not helpful.
Here's how I would solve that (there are other ways too):
#!/bin/bash
while IFS= read -r d
do
( cd "${d}_apo-3k9b" || exit
echo "${d}_apo-3k9b"
echo "${d}_apo-3k9b.dpf"
exec /home/comp/Apps/Autodock/autodock4 -p "${d}_apo-3k9b.dpf" -l
"${d}_apo-3k9b.dlg"
)
done
Many thanks for the update. I checked it and it works perfectly.
--
Stephen P. Molnar, Ph.D.Life is a fuzzy set
http://www.Molecular-Modeling.net Multivariate and stochastic
614.312.7528 (c)
Skype: smolnar1
Re: Strange Bash Script Problem
On 08/11/2019 11:56 AM, Lee wrote:
On 8/11/19, David wrote:
On Mon, 12 Aug 2019 at 01:07, Stephen P. Molnar
wrote:
Thanks for the suggestion.
However,
comp@AbNormal:~/Apps/Models/1-PhosphorusLigands/Acetylcholinesterases/3K9B/Results$
./Run.ligand.list.sh
./Run.ligand.list.sh: line 4: cd: $'Acetylcholine\r_apo-3k9b': No such
file or directory
The form of that error message indicates that
the directory name attempted as a result of
this substitution
cd "${d}_apo-3k9b"
contains a carriage return (\r) character.
Here's a demonstration:
[david@kablamm junk]$ cd foo$'\r'foo
bash: cd: $'foo\rfoo': No such file or directory
The $'\r' in my input command is a carriage return
character.
Note the identical form of quoting in my error message
and your error message.
The $'foo\rfoo' in the error message is a carriage
return character between two strings 'foo'.
If the mysterious carriage return character is not
in your ligand.list file, then it must be in
your Run.ligand.list.sh file just before the underscore
in the line
cd "${d}_apo-3k9b"
Have a look at your script file using
'cat -v Run.ligand.list.sh'
The effect of cat -v is to show control characters.
If possible, use an editor that can show control characters.
If not available, you can edit that line in your script file in a way
that would remove an invisible character in the suspect position.
Or you could try doing
dos2unix ligand.list
dos2unix Run.ligand.list.sh
and see if that gets rid of the embedded \r
Lee
Thanks to all that shared their expertise.
#!/bin/bash
while IFS= read -r d
do
cd "${d}_apo-3k9b"
echo "${d}_apo-3k9b"
echo "${d}_apo-3k9b.dpf"
/home/comp/Apps/Autodock/autodock4 -p "${d}_apo-3k9b.dpf" -l
"${d}_apo-3k9b.dlg"
cd ..
done http://www.Molecular-Modeling.net Multivariate and stochastic
614.312.7528 (c)
Skype: smolnar1
Re: Strange Bash Script Problem
On 08/11/2019 10:39 AM, David wrote:
On Sun, 11 Aug 2019 at 23:18, Stephen P. Molnar wrote:
I am running an up-to-date installation of Buster on my Linux platform
and have run into a strange problem with a bash script.
[...]
for d in $(cat ligand.list)
This line is the problem, it is vulnerable to various kinds
of breakage and is therefore bad practice, see here:
http://mywiki.wooledge.org/DontReadLinesWithFor
Try this instead, it is the recommended practice and
it may well solve your \r issue:
#!/bin/bash
while IFS= read -r d
do
cd "${d}_apo-3k9b"
echo "${d}apo-3k9b"
echo "${d}apo-3k9b.dpf"
/home/comp/Apps/Autodock/autodock4 -p "${d}apo-3k9b.dpf" -l
"${d}apo-3k9b.dlg"
cd ..
done
Thanks for the suggestion.
However,
comp@AbNormal:~/Apps/Models/1-PhosphorusLigands/Acetylcholinesterases/3K9B/Results$
./Run.ligand.list.sh
./Run.ligand.list.sh: line 4: cd: $'Acetylcholine\r_apo-3k9b': No such
file or directory
apo-3k9boline
apo-3k9b.dpfe
apo-3k9b.dpfpps/Autodock/autodock4: can't find or open parameter file
Acetylcholine
/home/comp/Apps/Autodock/autodock4: Unsuccessful Completion.
Same problem.
Incidentally, there are no embedded characters in the ligand.list.
--
Stephen P. Molnar, Ph.D.Life is a fuzzy set
http://www.Molecular-Modeling.net Multivariate and stochastic
614.312.7528 (c)
Skype: smolnar1
Strange Bash Script Problem
I am running an up-to-date installation of Buster on my Linux platform
and have run into a strange problem with a bash script.
I have a number of ligand protein docking applications which involve
ligand sets docking on a protein and am using Autodock with the the
Racoon file editor (https://autodock.scripps.edu/).
I have written a bash script which runs each set of ligand dockings:
#!/bin/sh
for d in $(cat ligand.list)
do
cd "${d}_apo-3k9b"
echo "${d}apo-3k9b"
echo "${d}apo-3k9b.dpf"
/home/comp/Apps/Autodock/autodock4 -p "${d}apo-3k9b.dpf" -l
"${d}apo-3k9b.dlg"
cd ..
done
The script has run successfully for several sets of ligands, but now
there is a problem:
comp@AbNormal:~/Apps/Models/1-PhosphorusLigands/Acetylcholinesterases/3K9B/Results$
./Run.ligand.list.sh
./Run.ligand.list.sh: line 3: cd: $'Acetylcholine\r_apo-3k9b': No such
file or directory
apo-3k9boline
apo-3k9b.dpfe
apo-3k9b.dpfpps/Autodock/autodock4: can't find or open parameter file
Acetylcholine
/home/comp/Apps/Autodock/autodock4: Unsuccessful Completion.
The problem is in the first 'cd' command in the do loop which is looking
for 'Acetylcholine_apo-3k9b', but is finding 'Acetylcholine\r_apo-3k9b',
and consequently, does not change in to the directory
'Acetylcholine_apo-3k9b'!
The only difference from the script that ran the previous successful
dockings, the '\r', is that I edited the script for the current use by
changing the name of the protein, in this case 'apo-3k9b'. I used Jedit
to edit the script and have no idea as to the source of the '\r' as
Jedit is using the Unix(\n) line separator.
Google has been of no help is solving the problem.
Any suggestions will be much appreciated.
Thanks in advance.
--
Stephen P. Molnar, Ph.D.Life is a fuzzy set
http://www.Molecular-Modeling.net Multivariate and stochastic
614.312.7528 (c)
Skype: smolnar1
Psensor Problem in Debian Buster
I have upgraded from Stretch to Buster. Psensor fails to autoscale the CPU temperature in Buster when I am logged in a user, although it did autoscale the temperature in Stretch. Buster shows the CPU temperature as 41 degrees Celsius as a user, but autoscales running as root. Insights to a solution to this problem would be most welcome. Thanks in advance. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Re: A followup on github discussion
On 07/26/2019 08:57 AM, Nicolas George wrote: Reco (12019-07-26): Today it was brought to my attention that GitHub has restricted access to users who live in countries that have US sanctions applied - [1]. You mean that GitHub respects the laws of the country where it operates? How shocking! Regards, This has all the makings of a flame war. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Re: Xfce4 Applications Appearance.
On 07/12/2019 01:51 PM, Dan Ritter wrote: Stephen P. Molnar wrote: I have just installed Buster with the Xfce Desktop and am finding problems with the appearance of some of the applications in tahat labels and icons are run together. I have attached a screenshot of the Pluma editor. During the installation of Buster I didn't add any icon sets. I did not encounter this problem is Stretch. What is the solution to this problem? With XFCE, you can use the settings manager to control: - DPI for the monitor - base system font size - base system font - icon set Fonts and icons can be installed -- see packages named *-icon-theme, or fonts-*. Some change to these might be helpful. -dsr- I solved the problem by installing the RC2 and making sure that the installation is up to date. Stephen P. Molnar, Ph.D. Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Xfce4 Applications Appearance.
I have just installed Buster with the Xfce Desktop and am finding problems with the appearance of some of the applications in tahat labels and icons are run together. I have attached a screenshot of the Pluma editor. During the installation of Buster I didn't add any icon sets. I did not encounter this problem is Stretch. What is the solution to this problem? Thanks in advance. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Re: Repair Grumb (grub)
Plese see responses to questions. . . . . On 07/11/2019 11:16 PM, David wrote: On Fri, 12 Jul 2019 at 05:09, Stephen P. Molnar wrote: I have Stretch installed on sda1 and Buster installed on sdd1 on my 64bit Linux platform. Unfortunately, grub on sdd1 became corrupted and the boot process fails after Buster is selected. Everyone reading this wonders: 1) why are you hiding the most important facts in your question? 2) what exact symptoms cause you to conclude that "grub on sdd1 became corrupted"? After allowing choice of Buster the boot hung with a '>' prompt. 3) did it ever work properly after installation, ie are we discussing a borked installation attempt, or did it work for a while and then "became" non-working? Worked fine after installation, until it no longer did. I don't have the faintest idea as to why. 4) what is the method that you use to change from attempting to boot sda1, or attempting to boot sdd1? F8 during post brings up a window listing drives and allowing choice of either sda or sdd. Ir I choise sdd the system hangs, if I chaise sda Stretch boots. 5) at what point in that method does "boot process fails" occur, and After the choice for the process to continue to Buster. what are its exact symptoms? 6) is EFI involved? No Your chances of receiving useful assistance are always improved by providing a detailed description of *the failure*. Without them, readers can only guess at what the problem might be, and readers with expertise are unlikely to respond because they have more interesting things to do than try to guess what someone is talking about. It is possible that the only "repair tool" you need is grub itself. You might just need to run 'grub-install' and specify sdd (not sdd1) as the target device (but I'm not certain, due to the lack of facts). See here: https://www.gnu.org/software/grub/manual/grub/grub.html#Invoking-grub_002dinstall Please be aware that if this command is misused it could make your machine unbootable. But if used correctly it should be fine. Comments and guidance will be much appreciated. Thanks in advance. I did my best. Hope it helps. If you provide the additional details requested, we might be able to offer better help. Good luck :) -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Repair Grumb
I have Stretch installed on sda1 and Buster installed on sdd1 on my 64bit Linux platform. Unfortunately, grub on sdd1 became corrupted and the boot process fails after Buster is selected. Fortunately, the Stretch grub still boots the system. Also, I can access the Buster install on sdd1 without any problems At this point I have downloaded the Boot Repair dist from Soourceforge -boot-repair-disk-64bit.iso and burned it to a DVD. The repair disk boots without any problems. However, I am a bit hesitant to use the repair tool. If I select sdd1 as the location for the repair in the advanced tab is there any danger of corrupting the Stretch grub on sda1? Of course, the safest thing would be to just reinstall Buster on sdd1. I hav already backed up the files. Comments and guidance will be much appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Re: Problem Installing DiscoveryStudio2019 in Buster
On 07/09/2019 05:15 AM, Curt wrote:
On 2019-07-08, Stephen P. Molnar wrote:
Good idea, but it didn't work! Got the same result, it just took longer.
https://forums.linuxmint.com/viewtopic.php?t=293074
Fastidious (27 steps!) but maybe effective.
Shorter:
bash DS2019Client.bin --keep
cd client/
sed s/"echoe"/"echo -e"/g install_DSClient.sh > install_DSClient_e.sh
bash install_DSClient_e.sh
(for the License Pack):
cd lp_installer/
bash lp_setup_linux.sh --keep
cd lpbuild/
sed s/"echoe"/"echo -e"/g install_lp.sh > install_lp_e.sh
I followed the Linux Mint Forum directions an got the results shown in
the attached DiscoveryStudio2019.run.log (attached).
Next step(s), please?
Thanks in advance.
--
Stephen P. Molnar, Ph.D.Life is a fuzzy set
http://www.Molecular-Modeling.net Multivariate and stochastic
614.312.7528 (c)
Skype: smolnar1
comp@AbNormal:~/Apps/Biovia2019/DiscoveryStudio2019/bin$ ./DiscoveryStudio2019
# Parse application name from $0 unless it's already set for us
if [ -z "$ACCELRYS_APPNAME" ] ; then
ACCELRYS_APPNAME=`basename $0`
fi
# Path to the installation
abspath="$(cd "${0%/*}" 2>/dev/null; echo "$PWD"/"${0##*/}")"
libfolder=`dirname "$abspath"`
ACCELRYS_ROOT="$libfolder/.."
# Source the global resource configuration file
GLOBALRC=$ACCELRYS_ROOT/etc/shrc
if [ -f "$GLOBALRC" ] ; then
. $GLOBALRC
fi
# Bourne Shell Resource Configuration file for the DS client and server
# applications
if [ -z "$ACCELRYS_ROOT" ] ; then
echo "ACCELRYS_ROOT is not set"
exit 1
fi
# Detect the platform name
if [ -z "$ACCELRYS_PLATFORM" ] ; then
case `uname` in
IRIX64) ACCELRYS_PLATFORM=irix;;
IRIX*) ACCELRYS_PLATFORM=irix;;
AIX)ACCELRYS_PLATFORM=aix;;
OSF1) ACCELRYS_PLATFORM=tru64;;
SunOS) ACCELRYS_PLATFORM=solaris;;
Linux) ACCELRYS_PLATFORM=linux;;
CYGWIN*)ACCELRYS_PLATFORM=win32;;
*) ACCELRYS_PLATFORM=unknown;;
esac
# special case for Itanium
if [ `uname -m` = "ia64" ] ; then
ACCELRYS_PLATFORM=linux_ia64
fi
fi
export ACCELRYS_PLATFORM
# Set up the executable and library paths
PATH=$ACCELRYS_ROOT/bin:$ACCELRYS_ROOT/lib:$PATH
LD_LIBRARY_PATH=$ACCELRYS_ROOT/lib:$ACCELRYS_ROOT/lib64
export ACCELRYS_ROOT
export PATH
export LD_LIBRARY_PATH
# -- Begin License check
# Set up the License Pack environment
# IMPORTANT - Any changes to this section should also be made in
# the apps/accelrys/ds/data/shrc file until these two files
# can be replaced by a single file, if possible
lp_location=$ACCELRYS_ROOT/share/license/data/lp_location
if [ -r "$lp_location" ] ; then
lp_dir=`cat "$lp_location"`
if [ -d "$lp_dir" ]; then
lp_varfile=$lp_dir/etc/lp_echovars
if [ -r "$lp_varfile" ] ; then
eval `"$lp_varfile" -l sh`
else
echo "Required file $lp_varfile can not be read."
fi
else
echo "License Pack location ($lp_dir) is not a valid location."
echo "Run $ACCELRYS_ROOT/bin/config_lp_location "
echo "to reconfigure."
fi
else
echo "Required file '$lp_location' can not be read."
fi
License Pack location (%LP_LOCATION%) is not a valid location.
Run /home/comp/Apps/Biovia2019/DiscoveryStudio2019/bin/../bin/config_lp_location
to reconfigure.
# -- End License check
if [ "$ACCELRYS_PLATFORM" != "irix" -a "$ACCELRYS_PLATFORM" != "aix" ] ; then
# Avoids difficult-to-debug crashes for several apps
ulimit -s 10240
fi
# Source the application resource configuration file
APPRC=$ACCELRYS_ROOT/share/$ACCELRYS_APPNAME/shrc
if [ -f "$APPRC" ] ; then
. $APPRC
fi
# Default value for how we exec the application
if [ -z "$ACCELRYS_EXEC" ] ; then
ACCELRYS_EXEC=exec
fi
# The binary executable for the application
ACCELRYS_BIN=$ACCELRYS_ROOT/lib/${ACCELRYS_APPNAME}-bin
if [ ! -f "$ACCELRYS_BIN" ] ; then
echo "ERROR: Application binary '$ACCELRYS_BIN' does not exist" 2>&1
exit 1
fi
# Print out the environment if debug mode is on
if [ "$ACCELRYS_DEBUG" -ne 0 ] ; then
ACCELRYS_QUIET=0
env
fi
USER=comp
XDG_SEAT=seat0
SSH_AGENT_PID=998
XDG_SESSION_TYPE=x11
SHLVL=1
LD_LIBRARY_PATH=/home/comp/Apps/Biovia2019/DiscoveryStudio2019/bin/../lib:/home/comp/Apps/Biovia2019/DiscoveryStudio2019/bin/../lib64
HOME=/home/comp
ACCELRYS_PLATFORM=linux
DESKTOP_SESSION=lightdm-xsession
RSTUDIO_CHROMIUM_ARGUMENTS=--disable-gpu
GTK_MODULES=gail:atk-bridge
XDG_SEAT_PATH=/org/freedesktop/DisplayManager/Seat0
DBUS_SESSION_BUS_ADDRESS=unix:path=/run/user/1000/bus
COLORTERM=truecolor
GLADE_MODULE_PATH=:
LOGNAME=comp
WINDOWID=77602512
_=./DiscoveryStudio2019
XDG_SESSION_CLASS=user
TERM=xter
Re: Problem Installing DiscoveryStudio2019 in Buster
On 07/08/2019 02:55 PM, Greg Wooledge wrote: On Mon, Jul 08, 2019 at 02:49:40PM -0400, Stephen P. Molnar wrote: It came from the Biovia web site. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic Like I know what a "Biovia" is. I'm guessing it has something to do with "Molecular-Modeling", and therefore I lump it into the broad category of "academia", which means it's poorly written but "works" as long as you build your entire machine to conform to whatever it requires. Good luck. https://www.3dsbiovia.com/ -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Re: Problem Installing DiscoveryStudio2019 in Buster
On 07/08/2019 02:46 PM, Erwan David wrote: Le 08/07/2019 ?? 20:40, Stephen P. Molnar a ??crit : I have just installed Buster and have encountereda a problem attempting the installation of biovia_2019_.ds2019client.bin: comp@AbNormal:~/Downloads/DiscoveryStudio$ ./biovia_2019.ds2019client.bin Verifying archive integrity... 100% All good. Uncompressing 'DS Client and extracting files, please wait ..' 100% ./install_DSClient.sh: 49: ./install_DSClient.sh: [[: not found ./install_DSClient.sh: 70: ./install_DSClient.sh: Syntax error: redirection unexpected Press Return to close this window... And not too surprising, Press Return did close the window. Anyone have any ideas as to a solution? Thanks in advance. [[ is a bash built-in not defined in dash. It might be that the .bin file is a bash script presented as a sh one. If file biovia_2019_.ds2019client.bin resturns "/bin/sh script" that would be almost sure. In that case try bash ./biovia_2019.ds2019client.bin to force bash interpreter Good idea, but it didn't work! Got the same result, it just took longer. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Re: Problem Installing DiscoveryStudio2019 in Buster
On 07/08/2019 02:44 PM, Greg Wooledge wrote: On Mon, Jul 08, 2019 at 02:40:18PM -0400, Stephen P. Molnar wrote: I have just installed Buster and have encountereda a problem attempting the installation of biovia_2019_.ds2019client.bin: comp@AbNormal:~/Downloads/DiscoveryStudio$ ./biovia_2019.ds2019client.bin Verifying archive integrity... 100% All good. Uncompressing 'DS Client and extracting files, please wait ..' 100% ./install_DSClient.sh: 49: ./install_DSClient.sh: [[: not found ./install_DSClient.sh: 70: ./install_DSClient.sh: Syntax error: redirection unexpected Press Return to close this window... Whoever wrote this shell script does not know what they're doing. You've uncovered 2 bugs in it already. There are probably a few hundred more. As a workaround, because you do not have direct access to the script (apparently it's in the downloaded payload), you may have to change your /bin/sh symlink to point to bash instead of dash. You may either leave it there, or change it back, after this is done. I would give serious consideration to finding a non-broken alternative to whatever this thing is, except there probably isn't any alternative, and you're stuck with it. It came from the Biovia web site. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Problem Installing DiscoveryStudio2019 in Buster
I have just installed Buster and have encountereda a problem attempting the installation of biovia_2019_.ds2019client.bin: comp@AbNormal:~/Downloads/DiscoveryStudio$ ./biovia_2019.ds2019client.bin Verifying archive integrity... 100% All good. Uncompressing 'DS Client and extracting files, please wait ..' 100% ./install_DSClient.sh: 49: ./install_DSClient.sh: [[: not found ./install_DSClient.sh: 70: ./install_DSClient.sh: Syntax error: redirection unexpected Press Return to close this window... And not too surprising, Press Return did close the window. Anyone have any ideas as to a solution? Thanks in advance. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Problem with Psensor in Buster
I have installed psensor and lm-sensors without any problems. However, the pasensor plot for the core temperature does not autorange, but only shows temperature differences between 37 Celsius and 40 Celsius. How do I fix this. Thanks in advance. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set http://www.Molecular-Modeling.net Multivariate and stochastic 614.312.7528 (c) Skype: smolnar1
Re: RStudio in Stretch Problem(s)
On 07/06/2019 09:52 AM, Curt wrote:
On 2019-07-06, Stephen P. Molnar wrote:
I am running Stretch RC2 and have encountered a problem attempting to
tun RStudio (-1.2.1335-amd64). Here is the run log:
comp@AbNormal:~$ comp@AbNormal:~$ /usr/bin/rstudio
-bash: comp@AbNormal:~$: command not found
comp@AbNormal:~$ Received signal 11 SEGV_MAPERR 0143
-bash: Received: command not found
comp@AbNormal:~$ #0 0x7fcd52087a4f
comp@AbNormal:~$ #1 0x7fcd52087e4b
comp@AbNormal:~$ #2 0x7fcd520884ce
comp@AbNormal:~$ #3 0x7fcd4d4aa730
comp@AbNormal:~$ #4 0x7fcd4452e5e9
comp@AbNormal:~$ #5 0x7fcd4453c4cf
comp@AbNormal:~$ #6 0x7fcd4453daa6
comp@AbNormal:~$ #7 0x7fcd4473ad6f
comp@AbNormal:~$ #8 0x7fcd447c7322
comp@AbNormal:~$ #9 0x7fcd447c7ca0
comp@AbNormal:~$ #10 0x7fcd4e1292df QOpenGLTextureBlitterPrivate::blit()
comp@AbNormal:~$ #11 0x7fcd4e0ab9f0 QPlatformBackingStore::composeAndFlush()
comp@AbNormal:~$ #12 0x7fcd47926aff QXcbBackingStore::composeAndFlush()
comp@AbNormal:~$ #13 0x7fcd4e69c3b4 QWidgetBackingStore::qt_flush()
comp@AbNormal:~$ #14 0x7fcd4e69d96e QWidgetBackingStore::flush()
comp@AbNormal:~$ #15 0x7fcd4e69edee QWidgetBackingStore::doSync()
comp@AbNormal:~$ #16 0x7fcd4e69f730 QWidgetBackingStore::sync()
comp@AbNormal:~$ #17 0x7fcd4e6b6a0f QWidgetPrivate::syncBackingStore()
comp@AbNormal:~$ #18 0x7fcd4e6cd930 QWidget::event()
comp@AbNormal:~$ #19 0x7fcd4e7cfaa1 QMainWindow::event()
comp@AbNormal:~$ #20 0x7fcd4e68fb3c QApplicationPrivate::notify_helper()
comp@AbNormal:~$ #21 0x7fcd4e696d30 QApplication::notify()
comp@AbNormal:~$ #22 0x7fcd4d752e28 QCoreApplication::notifyInternal2()
comp@AbNormal:~$ #23 0x7fcd4d755857
QCoreApplicationPrivate::sendPostedEvents()
comp@AbNormal:~$ #24 0x7fcd4d7aabb3 postEventSourceDispatch()
comp@AbNormal:~$ #25 0x7fcd489cdf2e g_main_context_dispatch
comp@AbNormal:~$ #26 0x7fcd489ce1c8
comp@AbNormal:~$ #27 0x7fcd489ce25c g_main_context_iteration
comp@AbNormal:~$ #28 0x7fcd4d7aa1ef QEventDispatcherGlib::processEvents()
comp@AbNormal:~$ #29 0x7fcd4d75178a QEventLoop::exec()
comp@AbNormal:~$ #30 0x7fcd4d75a190 QCoreApplication::exec()
comp@AbNormal:~$ #31 0x563bfcdb984f main
comp@AbNormal:~$ #32 0x7fcd4c9f409b __libc_start_main
comp@AbNormal:~$ #33 0x563bfcdbcb8a _start
comp@AbNormal:~$ r8: 0003 r9: 0098 r10:
r11: 563bff0d1db0
-bash: r8:: command not found
comp@AbNormal:~$ r12: 563bff573d48 r13: 7fccf813f280 r14:
r15: 563bff0d1db0
-bash: r12:: command not found
comp@AbNormal:~$ di: 7fccf81050e0 si: 563bff573d38 bp:
563bff573d38 bx: 00fb
-bash: di:: command not found
comp@AbNormal:~$ dx: 0001 ax: 0100 cx:
sp: 7ffeba5e1f60
-bash: dx:: command not found
comp@AbNormal:~$ ip: 7fcd4452e5e9 efl: 00010202 cgf:
002b0033 erf: 0004
-bash: ip:: command not found
comp@AbNormal:~$ trp: 000e msk: cr2:
0143
-bash: trp:: command not found
comp@AbNormal:~$ [end of stack trace]
-bash: [end: command not found
comp@AbNormal:~$ Calling _exit(1). Core file will not be generated.
-bash: syntax error near unexpected token `('
comp@AbNormal:~$ comp@AbNormal:~$
-bash: comp@AbNormal:~$: command not found
comp@AbNormal:~$
I would appreciate pointers towards the solution.
Thanks in advance.
What graphics card?
Seems like a rendering issue (new rendering in engine in 1.2).
Can you start the app like this?
export RSTUDIO_CHROMIUM_ARGUMENTS="--disable-gpu"
/usr/lib/rstudio/bin/rstudio
in which case you can turn off hardware acceleration permanently
(performance hit), or try toggling the GPU-related options in
the Advanced preferences pane (within Tools -> Global Options... ->
General -> Advanced).
Off the very top of my head.
https://support.rstudio.com/hc/en-us/articles/360017886674-Troubleshooting-RStudio-Rendering-Errors
Problem solved! Many thanks,
--
Stephen P. Molnar, Ph.D.Life is a fuzzy set
http://www.Molecular-Modeling.net Multivariate and stochastic
614.312.7528 (c)
Skype: smolnar1
RStudio in Stretch Problem(s)
I am running Stretch RC2 and have encountered a problem attempting to
tun RStudio (-1.2.1335-amd64). Here is the run log:
comp@AbNormal:~$ comp@AbNormal:~$ /usr/bin/rstudio
-bash: comp@AbNormal:~$: command not found
comp@AbNormal:~$ Received signal 11 SEGV_MAPERR 0143
-bash: Received: command not found
comp@AbNormal:~$ #0 0x7fcd52087a4f
comp@AbNormal:~$ #1 0x7fcd52087e4b
comp@AbNormal:~$ #2 0x7fcd520884ce
comp@AbNormal:~$ #3 0x7fcd4d4aa730
comp@AbNormal:~$ #4 0x7fcd4452e5e9
comp@AbNormal:~$ #5 0x7fcd4453c4cf
comp@AbNormal:~$ #6 0x7fcd4453daa6
comp@AbNormal:~$ #7 0x7fcd4473ad6f
comp@AbNormal:~$ #8 0x7fcd447c7322
comp@AbNormal:~$ #9 0x7fcd447c7ca0
comp@AbNormal:~$ #10 0x7fcd4e1292df QOpenGLTextureBlitterPrivate::blit()
comp@AbNormal:~$ #11 0x7fcd4e0ab9f0 QPlatformBackingStore::composeAndFlush()
comp@AbNormal:~$ #12 0x7fcd47926aff QXcbBackingStore::composeAndFlush()
comp@AbNormal:~$ #13 0x7fcd4e69c3b4 QWidgetBackingStore::qt_flush()
comp@AbNormal:~$ #14 0x7fcd4e69d96e QWidgetBackingStore::flush()
comp@AbNormal:~$ #15 0x7fcd4e69edee QWidgetBackingStore::doSync()
comp@AbNormal:~$ #16 0x7fcd4e69f730 QWidgetBackingStore::sync()
comp@AbNormal:~$ #17 0x7fcd4e6b6a0f QWidgetPrivate::syncBackingStore()
comp@AbNormal:~$ #18 0x7fcd4e6cd930 QWidget::event()
comp@AbNormal:~$ #19 0x7fcd4e7cfaa1 QMainWindow::event()
comp@AbNormal:~$ #20 0x7fcd4e68fb3c QApplicationPrivate::notify_helper()
comp@AbNormal:~$ #21 0x7fcd4e696d30 QApplication::notify()
comp@AbNormal:~$ #22 0x7fcd4d752e28 QCoreApplication::notifyInternal2()
comp@AbNormal:~$ #23 0x7fcd4d755857
QCoreApplicationPrivate::sendPostedEvents()
comp@AbNormal:~$ #24 0x7fcd4d7aabb3 postEventSourceDispatch()
comp@AbNormal:~$ #25 0x7fcd489cdf2e g_main_context_dispatch
comp@AbNormal:~$ #26 0x7fcd489ce1c8
comp@AbNormal:~$ #27 0x7fcd489ce25c g_main_context_iteration
comp@AbNormal:~$ #28 0x7fcd4d7aa1ef QEventDispatcherGlib::processEvents()
comp@AbNormal:~$ #29 0x7fcd4d75178a QEventLoop::exec()
comp@AbNormal:~$ #30 0x7fcd4d75a190 QCoreApplication::exec()
comp@AbNormal:~$ #31 0x563bfcdb984f main
comp@AbNormal:~$ #32 0x7fcd4c9f409b __libc_start_main
comp@AbNormal:~$ #33 0x563bfcdbcb8a _start
comp@AbNormal:~$ r8: 0003 r9: 0098 r10:
r11: 563bff0d1db0
-bash: r8:: command not found
comp@AbNormal:~$ r12: 563bff573d48 r13: 7fccf813f280 r14:
r15: 563bff0d1db0
-bash: r12:: command not found
comp@AbNormal:~$ di: 7fccf81050e0 si: 563bff573d38 bp:
563bff573d38 bx: 00fb
-bash: di:: command not found
comp@AbNormal:~$ dx: 0001 ax: 0100 cx:
sp: 7ffeba5e1f60
-bash: dx:: command not found
comp@AbNormal:~$ ip: 7fcd4452e5e9 efl: 00010202 cgf:
002b0033 erf: 0004
-bash: ip:: command not found
comp@AbNormal:~$ trp: 000e msk: cr2:
0143
-bash: trp:: command not found
comp@AbNormal:~$ [end of stack trace]
-bash: [end: command not found
comp@AbNormal:~$ Calling _exit(1). Core file will not be generated.
-bash: syntax error near unexpected token `('
comp@AbNormal:~$ comp@AbNormal:~$
-bash: comp@AbNormal:~$: command not found
comp@AbNormal:~$
I would appreciate pointers towards the solution.
Thanks in advance.
--
Stephen P. Molnar, Ph.D.Life is a fuzzy set
http://www.Molecular-Modeling.net Multivariate and stochastic
614.312.7528 (c)
Skype: smolnar1
Re: Update Two Problems
On 07/01/2019 08:31 AM, Sven Hartge wrote: Stephen P. Molnar wrote: More serious. however is the other error: [Connecting to prod.debian.map.fastly.net (2a04:4e42:3e::204)] Your system thinks to have IPv6 connectivity while it has not. Find out why this is the case and you solve this problem. A different (unelegant) workaround would be to edit /etc/gai.conf and activate the line that reads "precedence :::0:0/96 100" (line 54 in my file here). Gre, Sven. At this point in the life cycle of Stretch, elegance is not an issue. Your solution worked! Many thanks. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set Foundation for ChemistryMultivariate and stochastic http://www.Molecular-Modeling.net 614.312.7528 (c) Skype: smolnar1
Update Two Problems
I found it necessary to reinstall Debian Stretch on my primary computer and encountered two problems. The first problem was that the installer failed to verify updates at the uchicago mirror and commented out the applicable lines in the fstab. I can live with that as I use the v-9-9-0 is fr the installation and the issuance of Buster is imminent. More serious. however is the other error: [Connecting to prod.debian.map.fastly.net (2a04:4e42:3e::204)] I have goggled this and found some (very few, at least that I found) that address this problem and seem to give a solution for it. Help will be much appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set Foundation for ChemistryMultivariate and stochastic http://www.Molecular-Modeling.net 614.312.7528 (c) Skype: smolnar1
FossaMail
Does anyone out there have a copy of FossaMail they would be willing to share. I had a catastrophic failure of Stretch, had to reinstall and can't find my copy of FossaMail. Many thanks in advance. -- Stephen P. Molnar, Ph.D.Life is a fuzzy set Foundation for ChemistryMultivariate and stochastic http://www.Molecular-Modeling.net 614.312.7528 (c) Skype: smolnar1
Boot Problem
I have just installed a new SSD in my 64 bit Stretch platform. When I boot the machine I get the following error: error: file '/boot/grub/i386-pc/normalmod' not found Entering rescue mode .. . . grub rescue>_ Pressing Contro-Alt-Delete reboots the system. Pressing Delete , or F-8,during the post opens the ASUS UFEI Bios Utility - EZ mode (actually, F-8 opens the boot selection). Clicking on P0 boots the machine normally. Here are the drives: blkid /dev/sda1: UUID="b780b7fb-05a5-4996-8ad5-cd2a578bb4f2" TYPE="ext4" PARTUUID="a14552f2-01" /dev/sda5: UUID="2e6c48ee-b1b5-441e-ae90-549f5e3b6134" TYPE="swap" PARTUUID="a14552f2-05" /dev/sdc1: UUID="1f363165-2c59-4236-850d-36d1e807099e" TYPE="ext4" PARTUUID="eb2be395-01" /dev/sdb1: UUID="900b5f0b-4f3d-4a64-8c91-29aee4c6fd07" TYPE="ext4" PARTUUID="0bc7db76-01" /dev/sdb5: UUID="7c386aca-a547-475f-8616-f7664f93c595" TYPE="swap" PARTUUID="0bc7db76-05" /dev/sdd1: UUID="51941391-3c92-4370-a330-270d2c4d7003" TYPE="ext4" PARTUUID="7809855e-01" Sda1 is the Stretch OS (P0), sdd1 is the new drive. I had no problems installing the new drive, nor making it known to Stretch. My intention is to install Buster on sdd1, while maintaining Stretch on sda1 for a hopefully short period of time. I should note that I have added the i386 applications to /etc/apt/sources.list as a number of my applications require i386 libraries. I have absolutely no idea as to why the new boot error, nor the solution: 1. What might be the source of the error? 2. More importantly, what is the solution, would running update-grub solve the problem? Comments will be appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. Life is a fuzzy set www.molecular-modeling.netStochastic and multivariate (614)312-7528(c) Skype: smolnar1
Re: Dual Boot Two Debian Versions
On 06/11/2019 02:20 PM, Pascal Hambourg wrote: Le 11/06/2019 ?? 13:36, songbird a ??crit : what i'm not sure of is if you need to bother with putting the grub bootloader on it so at the end where it asks you perhaps you can skip that step. IMO installing GRUB can be desirable for two reasons. 1) Obviously, it allows the drive to boot by itself so that you can move it into another machine, or remove the current boot drive, or change the boot order. The OP uses legacy boot, but be aware that this won't work the same with EFI boot : installing a second instance of a Debian system will overwrite the existing EFI boot entry "debian". 2) It creates a grub.cfg file which provides hints about kernel parameters and so on when running update-grub from another system. Warning : you should disable os-prober when running update-grub on a non-boot system, otherwise it may happen that update-grub adds duplicate menu entries (sometimes hundreds !). I'm the OP and now I'm concerned and rather confused. Fortunately, I haven't installed the new drive at this point. Should I, or should I not, install the the Buster grub sub-directory on sdd, the drive on which I intend installing Buster? My understanding has been that I could install Buster, but not boot it at the end of the installation, bur rather close buster, reboot the computer into Stretch as root and then run update-grub in Stretch. Is this still a safe way to proceed? My intent is to remove Stretch from the platform once that I'm confident with the performance of Buster, and the inevitable first problems with a new version of the OS have been resolved. But now I wondering about that course of action. Please be advised that I'm a Chemist, not a Computer Engineer. Further comments will be much appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. Life is a fuzzy set www.molecular-modeling.netStochastic and multivariate (614)312-7528(c) Skype: smolnar1
Dual Boot Two Debian Versions
My Debian platform has four drives: NAME MAJ:MIN RM SIZE RO TYPE MOUNTPOINT sda 8:0 0 465.8G 0 disk ??sda1 8:1 0 457.9G 0 part / ??sda2 8:2 0 1K 0 part ??sda5 8:5 0 7.9G 0 part [SWAP] sdb 8:16 0 1.8T 0 disk ??sdb1 8:17 0 1.8T 0 part /sdb1 ??sdb2 8:18 0 1K 0 part ??sdb5 8:21 0 7.9G 0 part sdc 8:32 0 465.8G 0 disk ??sdc1 8:33 0 465.8G 0 part /sdc1 sr0 11:0 1 2K 0 rom sda is a 500 GB SSD, currently the boot drive, running Stretch sdb is a 2 TB mechanical hard drive, used for storage and sbc is a 500 GD SSD, containg a number of computational chemistry applications that I use for my research. I am planning on adding a 1 TB SSD to the system to be dedicated to Buster (currently Testing). I know that if I select the new drive (for the purpose of this note, sdd) for Buster during the installation process from the iso DVD, that Buster will be installed on sdd and grub will show that as the boot drive. There would also be an entry in grub for Stretch on sda. Herein lies the problem, sda is the boot drive, but Buster would not be a grub entry. Whenever I reboot the system, Buster will be hidden. A workaround would be to hit the appropriate key during the initial stages of the boot process to open the Bios and then manually select Buster to boot. Couple of questions: Will installing Buster on sdd do anything to make Stretch unbootable? Is there a way that I can add Buster to the Stretch Grub Boot Screen? Perhaps grub-customizer? I know this is rather convoluted, but it is essential, for non technical reasons to keep Stretch available while I am using Buster. Thanks in advance. -- Stephen P. Molnar, Ph.D. Life is a fuzzy set www.molecular-modeling.net Stochastic and multivariate (614)312-7528(c) Skype: smolnar1
Re: That time IPv6 farted in Gene's church (Was Re: forcedeth?)
On 05/28/2019 08:02 AM, Gene Heskett wrote: On Monday 27 May 2019 11:18:49 pm Joe Pfeiffer wrote: Gene Heskett writes: On Monday 27 May 2019 03:42:52 pm Jonas Smedegaard wrote: Quoting Gene Heskett (2019-05-27 19:42:46) On Monday 27 May 2019 03:46:00 am Curt wrote: On 2019-05-27, wrote: If Network Manager is giving you grief, please go bark up /that/ tree (I can't say much about N-M, because I banned it from my boxes about ten years ago: I was at a customer's, in his LAN via an Ethernet, when N-M suddenly saw a WLAN out there, out the window and said "oh, let's go online over there" and obliterated my network setting in favor of some seedy captive portal. That was when I decided that N-M and me, we aren't made for each other). This is a grave bug. I suppose we can assume from your description that the seedier the wifi portal, the more likely it is to spontaneously occur, despite any and all user configuration or intervention. This would appear to be more common, but as far as filing a bug report, I logged in to do something in 2015, creating a new account at the time, so now it refuses to let me in because the username content rules have been changed and my username is now invalid. And because it knows my email address, it won't let me create a new account. So its the classic chicken v egg. I am locked out, so I rant on this list. Account? You need no account to report bugs in Debian: https://www.debian.org/Bugs/Reporting So that indicates I should have apt install reportbug, so I did. Configured it on 1st run. then became me and ran it again. It never heard of NetworkManager or Network-Manager. WTH? Debian package names are all lower case, and for better or worse the package management software is case-sensitive. A detail I had forgotten due to all the capitalization used to refer to it publicly. snowball:532$ reportbug Please enter the name of the package in which you have found a problem, or type 'other' to report a more general problem. If you don't know what package the bug is in, please contact debian-user@lists.debian.org for assistance. network-manager *** Welcome to reportbug. Use ? for help at prompts. *** Note: bug reports are publicly archived (including the email address of the submitter). Detected character set: UTF-8 Please change your locale if this is incorrect. Using 'Joe Pfeiffer ' as your from address. Getting status for network-manager... Checking for newer versions at madison... Your version (1.14.6-2) of network-manager appears to be out of date. The following newer release(s) are available in the Debian archive: experimental: 1.18.0-1 Please try to verify if the bug you are about to report is already addressed by these releases. Do you still want to file a report [y|N|q|?]? And this exposes something in debian's policy I object to, as strenuously as I can. A newer version may well fix the bug, but its never given to the users until they upgrade to the next release, and that brings a never shrinking list of new bugs. The withholding of showstopper bug fixes from a released version, by putting them in an experimental category where only a very small inner circle has access to them is not an impressive idea. IMO a showstopper bugfix should be offered immediately to all releases currently supported. The wheezy version of firefox may have been marginally better than a horse with 3 broken legs, (another leg was broken by each update as it was during wheezy) but we were denied the improved versions as a matter of "policy". IMO, that sucks dead toads thru soda straws. But I don't set policy. It is what it is, but thats how this diehard fan of debian see's it. TBT, I'd be happy paying say $100 year for a seat at the table where serious bugs were fixed while the release was still alive. Not however on a machine count basis as RH is doing. That would satisfy me as a good TANSTAAFL compromise, and would, I'd think buy a longer ladder up the side of the hog for the folks actually doing the work. I am sure they would appreciate that! (at which point I entered a ^C since I didn't actually want to report a bug) Cheers, Gene Heskett How about moving this thread to a Developer's mailing list? -- Stephen P. Molnar, Ph.D. Life is a fuzzy set www.molecular-modeling.netStochastic and multivariate (614)312-7528(c) Skype: smolnar1
Rstudio Crashes.
I have installed R-3.3.3 and RStudio-1.2.1335-amd on my Stretch platform. There were no installer complaints with any of the packages during the installation. RStudio opens without messages, but when I attempt downloading and installing an application there is a series of errors and RStudio closes: Script started on Sat 18 May 2019 08:24:26 AM EDT (base) ]0;comp@AbNormal: ~[01;32mcomp@AbNormal[00m:[01;34m~[00m$ rstudio nouveau: kernel rejected pushbuf: No such file or directory nouveau: ch6: krec 0 pushes 0 bufs 1 relocs 0 nouveau: ch6: buf 0005 0004 0004 nouveau: kernel rejected pushbuf: No such file or directory nouveau: ch6: krec 0 pushes 1 bufs 14 relocs 0 nouveau: ch6: buf 0005 0004 0004 nouveau: ch6: buf 0001 0006 0004 0004 nouveau: ch6: buf 0002 002d 0002 0002 nouveau: ch6: buf 0003 0052 0004 0004 nouveau: ch6: buf 0004 0005 0004 0004 nouveau: ch6: buf 0005 0014 0002 0002 nouveau: ch6: buf 0006 0007 0002 0002 Received signal 11nouveau: ch6: buf 0007 0007 0002 0002 SEGV_MAPERR 0008nouveau: ch6: buf 0008 0008 0002 0002 nouveau: ch6: buf 0009 000b 0002 0002 nouveau: ch6: buf 000a 000b 0002 0002 nouveau: ch6: buf 000b 000a 0002 0002 0002 nouveau: ch6: buf 000c 0006 0004 0004 nouveau: ch6: buf 000d 0015 0002 0002 nouveau: ch6: psh 0004 06376c 0637f4 nouveau: 0x200203fd <...cut nouveau: 0x1000f010 Segmentation fault (base) ]0;comp@AbNormal: ~[01;32mcomp@AbNormal[00m:[01;34m~[00m$ exit Script done on Sat 18 May 2019 08:25:03 AM EDT Help will be much appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. Life is a fuzzy set www.molecular-modeling.netStochastic and multivariate (614)312-7528(c) Skype: smolnar1
A Ghost in the Computer
Perhaps this is not the appropriate forum for this problem but the Debian List has been an invaluable resource over the years. I happen to be a Chemist and although I've been using computers in my work since the 1960's, I am not a computer person, only a user. I am running Debian Stretch on my main computer. I have an AMDFX-8320 Eight-Core Processor on a ASUS MSAR2.0 Moptherboard and 8GB of running XFCE4. I an encountering a rather odd problem for which I have no explanation. If I have more that three or four apps open at one time, all of the non-active windows will pop open at random and predictable times with the result that no one window will be useable, unless I close every app that's open. This performance is rather annoying and rather disruptive. Any suggestions will be appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. Life is a fuzzy set www.molecular-modeling.netStochastic and multivariate (614)312-7528(c) Skype: smolnar1
Re: Fstab Questions (Final time)
On 03/18/2019 02:50 PM, Dan Ritter wrote: Stephen P. Molnar wrote: On 03/18/2019 11:36 AM, Dan Ritter wrote: Stephen P. Molnar wrote: I now have a system that boots without any problems. The fstab is: # # / was on /dev/sda1 during installation UUID=71f1ed49-9178-4bbc-b872-510f7982e245 / ext4 errors=remount-ro 0 1 # swap was on /dev/sda5 during installation UUID=4b041dec-d00f-4acf-a731-f6a34d885105 none swap sw 0 0 UUID=900b5f0b-4f3d-4a64-8c91-29aee4c6fd07 /sdb1 ext4 rw,users,defaults 0 0 UUID=1f363165-2c59-4236-850d-36d1e807099e /sdc1 ext4 rw,users,defaults 0 0 /dev/sr0 /media/cdrom0 udf,iso9660 user,noauto 0 0 from man mount: users Allow any user to mount and to unmount the filesystem, even when some other ordinary user mounted it. This option implies the options noexec, nosuid, and nodev noexec overrules your permissions. -dsr- This makes sense. So what is the solution? Remove users from the fstab entries? You can do that, or you can add the option exec. -dsr- Many thanks. adding the exec option solved the problem. -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Re: Fstab Questions (Final time)
On 03/18/2019 11:36 AM, Dan Ritter wrote: Stephen P. Molnar wrote: I now have a system that boots without any problems. The fstab is: # # / was on /dev/sda1 during installation UUID=71f1ed49-9178-4bbc-b872-510f7982e245 / ext4 errors=remount-ro 0 1 # swap was on /dev/sda5 during installation UUID=4b041dec-d00f-4acf-a731-f6a34d885105 none swap sw 0 0 UUID=900b5f0b-4f3d-4a64-8c91-29aee4c6fd07 /sdb1 ext4 rw,users,defaults 0 0 UUID=1f363165-2c59-4236-850d-36d1e807099e /sdc1 ext4 rw,users,defaults 0 0 /dev/sr0 /media/cdrom0 udf,iso9660 user,noauto 0 0 comp@AbNormal:/sdc1/Apps$ l total 68208 drwxr-xr-x 27 comp comp 4096 Jan 1 09:17 Fortran -rwxrwxrwx 1 comp comp 69826864 Mar 18 10:16 Miniconda3-latest-Linux-x86_64.sh drwxr-xr-x 57 comp comp 4096 Feb 11 13:24 Models drwxr-xr-x 3 comp comp 4096 Mar 17 08:43 orca drwxr-xr-x 41 comp comp 4096 Feb 2 13:02 Python Unfortunately, when I attemped running MMiniconda3-latest-Linux-x86_64.sh I got; in part: Miniconda3 will now be installed into this location: /home/comp/miniconda3 - Press ENTER to confirm the location - Press CTRL-C to abort the installation - Or specify a different location below [/home/comp/miniconda3] >>> /sdc1/Apps/miniconda3 PREFIX=/sdc1/Apps/miniconda3 installing: python-3.7.1-h0371630_7 ... Miniconda3-latest-Linux-x86_64.sh: 370: Miniconda3-latest-Linux-x86_64.sh: /sdc1/Apps/miniconda3/pkgs/python-3.7.1-h0371630_7/bin/python: Permission denied Even I can see that I have a permissions problem. from man mount: users Allow any user to mount and to unmount the filesystem, even when some other ordinary user mounted it. This option implies the options noexec, nosuid, and nodev noexec overrules your permissions. -dsr- This makes sense. So what is the solution? Remove users from the fstab entries? -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Re: Fstab Questions (Final time)
specify a different location below [/home/comp/miniconda3] >>> /sdc1/Apps/miniconda3 PREFIX=/sdc1/Apps/miniconda3 installing: python-3.7.1-h0371630_7 ... Miniconda3-latest-Linux-x86_64.sh: 370: Miniconda3-latest-Linux-x86_64.sh: /sdc1/Apps/miniconda3/pkgs/python-3.7.1-h0371630_7/bin/python: Permission denied Even I can see that I have a permissions problem. Help addressing this problem will be greatly appreciated. Thanks in advance. -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Fstab Questions (Final time)
At least I hope it's the final time. I know that I have posted this question before, but due to reinstalling the OS, I have a clean slate at this point. Now, I've done quite a bit of goggling and utubing and I want to be sure that I'm not going to crash the system when I add two drives to the fstab. Here is my current drive structure: NAME MAJ:MIN RM SIZE RO TYPE MOUNTPOINT sda 8:0 0 465.8G 0 disk ├─sda1 8:1 0 457.9G 0 part / ├─sda2 8:2 0 1K 0 part └─sda5 8:5 0 7.9G 0 part [SWAP] sdb 8:16 0 1.8T 0 disk ├─sdb1 8:17 0 1.8T 0 part ├─sdb2 8:18 0 1K 0 part └─sdb5 8:21 0 7.9G 0 part sdc 8:32 0 465.8G 0 disk └─sdc1 8:33 0 465.8G 0 part sr0 11:0 1 1024M 0 rom sdc is a new SSD and I formatted it with only one partition. sdb still has a previous OS that I intend removing. Here are the the results of blkid: /dev/sda1: UUID="71f1ed49-9178-4bbc-b872-510f7982e245" TYPE="ext4" PARTUUID="1435f170-01" /dev/sda5: UUID="4b041dec-d00f-4acf-a731-f6a34d885105" TYPE="swap" PARTUUID="1435f170-05" /dev/sdc1: UUID="1f363165-2c59-4236-850d-36d1e807099e" TYPE="ext4" PARTUUID="eb2be395-01" /dev/sdb1: UUID="900b5f0b-4f3d-4a64-8c91-29aee4c6fd07" TYPE="ext4" PARTUUID="0bc7db76-01" /dev/sdb5: UUID="7c386aca-a547-475f-8616-f7664f93c595" TYPE="swap" PARTUUID="0bc7db76-05" Here is the curerent fstab (missing exteraneous comment statements): # # / was on /dev/sda1 during installation UUID=71f1ed49-9178-4bbc-b872-510f7982e245 / ext4 errors=remount-ro 0 1 # swap was on /dev/sda5 during installation UUID=4b041dec-d00f-4acf-a731-f6a34d885105 none swap sw 0 0 /dev/sr0 /media/cdrom0 udf,iso9660 user,noauto 0 0 Finally, here is what I am proposing adding to the fstab: UUID=900b5f0b-4f3d-4a64-8c91-29aee4c6fd07 /sdb1 ext4 rw,users,defaults 0 0 UUID=1f363165-2c59-4236-850d-36d1e807099e /sdc1 ext4 rw,users,defaults 0 0 Note: I have added /sdb1 and /sdc1. The only questions at this point are: 1. Will these changes crash the system,and 2. Will I be able to read adn write to the added drives? Thanks in advance. -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Re: Installing Debian on SSD
On 03/12/2019 05:44 AM, Joe wrote:
On Tue, 12 Mar 2019 08:20:31 +0330
"Iman P." wrote:
Dear Sir/Madam
First thanks for your time.
I have an Acer laptop (Aspire E1, x64, amd i7, ram 16, vga 2).
My base tasks are using virtual machines.
I use dual boot for Win10 & Debian 8.6 & the type of Bios boot is
“Legacy”.
I gonna change my HDD to SSD & install just Debian 9.8 (so need at
least two primary partitions).
My mainboard supports both legacy & uefi mode.
I know uefi mode just run on GPT not MBR.
Please consult,
Are you agree to install debian on uefi mode?
Yes, the current Debian 9 netinstall will install in uefi mode. If you
don't have an optical drive, and virtually nothing does nowadays, you
will need to write it to USB stick with dd or a Windows raw write
utility.
If yes,
Is it enough to change Bios type to “uefi” & then start installation?
Probably, but this is where you tell us. Unfortunately, manufacturers
do not test their products with twenty distributions of Linux, in fact
not usually even one. So there is no giant database of Linux
compatibility of products.
There is a limited database compiled by users, but it is generally a
bit out of date, and only covers a handful of the thousands of
computers of recent manufacture. There are also reviews, which mention
five or six models.
If you're very lucky, someone reading this will have already done it.
But the chances are very small, people looking for a new laptop to tun
Linux are generally directed towards Dell.
As it happens, I have recently installed Debian on a Windows 10 Acer
Aspire, but that is no help to you, as it's an ES1-132 netbook, and
undoubtedly has completely different hardware. There's no 'legacy' in
the BIOS. I left Win10 on the built-in 32GB (!) SSD, and installed a
standard SSD in the space provided. The netinstall installer then dealt
correctly with the new SSD, and I can even still boot into Win10 should
I wish to, for some strange reason.
Deeply thanks for your help.
Peyvand
{My system specification is:
System Model: Aspire E1-572PG - x64
BIOS Version/Date: Insyde Corp. V2.17, 02-Sep-14
Processor: Intel(R) Core(TM) i7-4500U CPU @ 1.80GHz, 2401 Mhz, 2
Core(s), 4 Logical Processor(s)
BIOS Mode now: Legacy}
I have installed Stretch on an SSD, with uefi, without any trouble.
--
Stephen P. Molnar, Ph.D.
Consultant
www.molecular-modeling.net
(614)312-7528 (c)
Skype: smolnar1
Re: User rw Permissions on New Hard Drive
I would beg the group's indulgence again, as I want to be sure I get this correctly. I think this is what I want as the fstab: # /etc/fstab: static file system information. # # Use 'blkid' to print the universally unique identifier for a # device; this may be used with UUID= as a more robust way to name devices # that works even if disks are added and removed. See fstab(5). # # # / was on /dev/sda1 during installation UUID=4dc278b7-1792-4e89-b67e-a517fce97d19 / ext4 errors=remount-ro 0 1 # swap was on /dev/sda5 during installation UUID=acfb9d26-69c6-4489-88fc-12f5c50bda97 none swap sw 0 0 UUID=900b5f0b-4f3d-4a64-8c91-29aee4c6fd07 /sdb1 ext4 defaults,errors=remount-ro 0 1 UUID=1f363165-2c59-4236-850d-36d1e807099e /Apps ext4 defaults,errors=remount-ro 0 1 /dev/sr0 /media/cdrom0 udf,iso9660 user,noauto 0 0 in addition I need to have: /sbd1 /Apps /dev/sdb1 /dev/Apps Comments and corrections will be much appreciated. Thanks in advance. Regards, Steve -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Fdw Fstab Questions
P;ease see correction, below: Original Message Subject:Fstab Questions Date: Tue, 05 Mar 2019 14:14:55 -0500 From: Stephen P. Molnar To: COLUG I have just reinstalled Debian Stretch and have soee questions about the fstab. I have installed a new hdc. Here is my durectiry stucture: NAME MAJ:MIN RM SIZE RO TYPE MOUNTPOINT sda 8:0 0 465.8G 0 disk ??sda1 8:1 0 457.9G 0 part / ??sda2 8:2 0 1K 0 part ??sda5 8:5 0 7.9G 0 part [SWAP] sdb 8:16 0 1.8T 0 disk ??sdb1 8:17 0 1.8T 0 part /media/comp/900b5f0b-4f3d-4a64-8c91-29aee4c6fd07 ??sdb2 8:18 0 1K 0 part ??sdb5 8:21 0 7.9G 0 part sdc 8:32 0 465.8G 0 disk ??sdc1 8:33 0 465.8G 0 part /media/comp/1f363165-2c59-4236-850d-36d1e807099e sr0 11:0 1 1024M 0 rom Here is what I have the installed fstab: # /etc/fstab: static file system information. # # Use 'blkid' to print the universally unique identifier for a # device; this may be used with UUID= as a more robust way to name devices # that works even if disks are added and removed. See fstab(5). # # # / was on /dev/sda1 during installation UUID=4dc278b7-1792-4e89-b67e-a517fce97d19 / ext4 errors=remount-ro 0 1 # swap was on /dev/sda5 during installation UUID=acfb9d26-69c6-4489-88fc-12f5c50bda97 none swap sw 0 0 /dev/sr0 /media/cdrom0 udf,iso9660 user,noauto 0 0 Here is what I'm proposing: /dev/sda1 / ext4 defaults 0 1 <== /dev/sda5 none swap sw 0 0 <== /dev/sdb1 /hdb1 ext4 defaults 0 0 <== /dev/sdc1 /hdc1 ext4 defaults 0 0 <== There are two key questions: 1. Will the boot proceed to completion? 2. Will users have read/write permission? Finally, if the answer(s), to either or both, is/are 'no' - what should the fstab entries be in order to allow users to Read/Write? Thanks in advance. -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1 -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Re: User rw Permissions on New Hard Drive
On 03/01/2019 01:56 PM, David Wright wrote: On Fri 01 Mar 2019 at 08:46:30 (-0500), Stephen P. Molnar wrote: I am sure that you will castigate men for two things: 1. Top posting 2. Not replying to debian-users However, I wanted to keep my reply private in the hope of not starting a flame war. Please see my further comment below. Thanks for your reply. i think that we are on the same page, now. I would ask your indulgence for one more request. Here is my durectiry stucture: NAME MAJ:MIN RM SIZE RO TYPE MOUNTPOINT sda 8:00 465.8G 0 disk ├─sda1 8:10 457.9G 0 part / ├─sda2 8:20 1K 0 part └─sda5 8:50 7.9G 0 part [SWAP] sdb 8:16 0 1.8T 0 disk ├─sdb1 8:17 0 1.8T 0 part /media/comp/900b5f0b-4f3d-4a64-8c91-29aee4c6fd07 ├─sdb2 8:18 0 1K 0 part └─sdb5 8:21 0 7.9G 0 part sdc 8:32 0 465.8G 0 disk └─sdc1 8:33 0 465.8G 0 part /media/comp/1f363165-2c59-4236-850d-36d1e807099e sr0 11:01 1024M 0 rom Here is what I have asteh installed fstab: # /etc/fstab: static file system information. # # Use 'blkid' to print the universally unique identifier for a # device; this may be used with UUID= as a more robust way to name devices # that works even if disks are added and removed. See fstab(5). # # # / was on /dev/sda1 during installation UUID=4dc278b7-1792-4e89-b67e-a517fce97d19 / ext4 errors=remount-ro 0 1 # swap was on /dev/sda5 during installation UUID=acfb9d26-69c6-4489-88fc-12f5c50bda97 noneswap sw 0 0 /dev/sr0/media/cdrom0 udf,iso9660 user,noauto 0 0 Here is wwhat I'm proposing: /dev/hda1 / ext4 defaults 0 1 /dev/hda5 none swap sw 0 0 /dev/hdb1 /hdb1 ext4 defaults 0 0 /dev/hdc1 /hdc1 ext4 defaults 0 0 There are two key questions: 1. Will the boot proceed to completion? 2. Will users have read/write permission? Finally, if the answer(s), to either or both, is/are 'no' - what should the fstab entries be in order to allow users to Read/Write? This is rather critical for my continuing good health. If I crash the system and have to reinstall the OS my wife is going to be greatly displeased. I would like to avoid this fate. Thanks in advance. Regards, Steve -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Re: Set Psensor Chart Temperature Range
On 03/04/2019 09:02 AM, Alexander V. Makartsev wrote: On 04.03.2019 18:35, Stephen P. Molnar wrote: How is the Psensor chart temperature range set? Temperature range is set dynamically by sensor readings, for entire graph duration. You can set graph duration in Preferences > Graph. -- With kindest regards, Alexander. ⢀⣴⠾⠻⢶⣦⠀ ⣾⠁⢠⠒⠀⣿⡁ Debian - The universal operating system ⢿⡄⠘⠷⠚⠋⠀https://www.debian.org ⠈⠳⣄ Thaks for the reply. Unfortunately, it doesn't seem to be working. This is a new installation of the OS, due to a catastrophic crash of the system. -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Set Psensor Chart Temperature Range
How is the Psensor chart temperature range set? -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
User rw Permissions on New Hard Drive
I am running Stretch and after much trial and tribulation, and at times abject horror, I have succeeded in installing a new SSD. My drive structure is: comp@AbNormal:~$ lsblk NAME MAJ:MIN RM SIZE RO TYPE MOUNTPOINT sda 8:00 465.8G 0 disk ├─sda1 8:10 457.9G 0 part / ├─sda2 8:20 1K 0 part └─sda5 8:50 7.9G 0 part [SWAP] sdb 8:16 0 1.8T 0 disk ├─sdb1 8:17 0 1.8T 0 part /sdb1 ├─sdb2 8:18 0 1K 0 part └─sdb5 8:21 0 7.9G 0 part sdc 8:32 0 465.8G 0 disk └─sdc1 8:33 0 465.8G 0 part /sdc1 sr0 11:01 1024M 0 rom and my fstab is: # /etc/fstab: static file system information. # # Use 'blkid' to print the universally unique identifier for a # device; this may be used with UUID= as a more robust way to name devices # that works even if disks are added and removed. See fstab(5). # # # / was on /dev/sda1 during installation UUID=ce25f0e1-610d-4030-ab47-129cd47d974e / ext4 errors=remount-ro 0 1 # swap was on /dev/sda5 during installation UUID=a8f6dc7e-13f1-4495-b68a-27886d386db0 noneswap sw 0 0 /dev/sr0/media/cdrom0 udf,iso9660 user,noauto 0 0 UUID=900b5f0b-4f3d-4a64-8c91-29aee4c6fd07 /sdb1 ext4 errors=remount-ro 0 1 UUID=1f363165-2c59-4236-850d-36d1e807099e /sdc1 ext4 errors=remount-ro 0 1 Finally, my user group structure is (comp is the user): comp cdrom floppy sudo audio dip video plugdev users netdev lpadmin scanner The problem is how do I set rw permissions on the new SSD? Googling only leaves me in a high state of mental entropy. Solutions will be welcome. Thanks in advance. -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Re: Apt Update Problem
Thanks for the reply. Well, that's a relief. On 02/27/2019 09:22 AM, Dan Ritter wrote: Stephen P. Molnar wrote: I am running up-to-date Stretch. This morning when I did 'apt update' I got: root@AbNormal:/home/comp# apt update Ign:1 http://debian.uchicago.edu/debian stretch InRelease Hit:2 http://debian.uchicago.edu/debian stretch-updates InRelease Hit:3 http://debian.uchicago.edu/debian stretch-backports InRelease Hit:4 http://debian.uchicago.edu/debian stretch Release Get:5 http://security.debian.org/debian-security stretch/updates InRelease [94.3 kB] Hit:6 https://repo.skype.com/deb stable InRelease Get:8 http://security.debian.org/debian-security stretch/updates/main i386 Packages [476 kB] Get:9 http://security.debian.org/debian-security stretch/updates/main amd64 Packages [474 kB] Get:10 http://security.debian.org/debian-security stretch/updates/contrib amd64 Packages [1,760 B] Get:11 http://security.debian.org/debian-security stretch/updates/contrib i386 Packages [1,764 B] Reading package lists... Done E: Release file for http://debian.uchicago.edu/debian/dists/stretch-updates/InRelease is expired (invalid since 23h 39min 42s). Updates for this repository will not be applied. E: Release file for http://debian.uchicago.edu/debian/dists/stretch-backports/InRelease is expired (invalid since 23h 39min 42s). Updates for this repository will not be applied. root@AbNormal:/home/comp# Google was of no help. What is going on here? That particular mirror is 24 hours out of date. If you need work done today, pick another mirror by changing your /etc/apt/sources.list or sources.d/* The list of mirrors is at https://www.debian.org/mirror/list -dsr- -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Apt Update Problem
I am running up-to-date Stretch. This morning when I did 'apt update' I got: root@AbNormal:/home/comp# apt update Ign:1 http://debian.uchicago.edu/debian stretch InRelease Hit:2 http://debian.uchicago.edu/debian stretch-updates InRelease Hit:3 http://debian.uchicago.edu/debian stretch-backports InRelease Hit:4 http://debian.uchicago.edu/debian stretch Release Get:5 http://security.debian.org/debian-security stretch/updates InRelease [94.3 kB] Hit:6 https://repo.skype.com/deb stable InRelease Get:8 http://security.debian.org/debian-security stretch/updates/main i386 Packages [476 kB] Get:9 http://security.debian.org/debian-security stretch/updates/main amd64 Packages [474 kB] Get:10 http://security.debian.org/debian-security stretch/updates/contrib amd64 Packages [1,760 B] Get:11 http://security.debian.org/debian-security stretch/updates/contrib i386 Packages [1,764 B] Reading package lists... Done E: Release file for http://debian.uchicago.edu/debian/dists/stretch-updates/InRelease is expired (invalid since 23h 39min 42s). Updates for this repository will not be applied. E: Release file for http://debian.uchicago.edu/debian/dists/stretch-backports/InRelease is expired (invalid since 23h 39min 42s). Updates for this repository will not be applied. root@AbNormal:/home/comp# Google was of no help. What is going on here? Thanks in advance. -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
Re: Swapping Drives - Sanity Check
On 02/22/2019 10:02 AM, David Wright wrote: On Fri 22 Feb 2019 at 09:19:53 (-0500), Stephen P. Molnar wrote: On 02/22/2019 09:13 AM, Dan Ritter wrote: Stephen P. Molnar wrote: My Debian Stretch system has three HD's. I want to remove one of the HD's (not sda) and replace it with a new HD.. What I need to be sure of is, if I remove the old drive from the fstab and delete the mount point will the system boot after I put in the new HD. so that I can edit the fstab and create a mount point for the new drive? Hence, the request for the sanity check. The system needs the following to boot: - the BIOS or UEFI needs to know which drive has a boot loader. - that drive needs a boot loader (usually grub) - the boot loader needs to know where to load the kernel and possibly an init filesystem from - the kernel needs to be able to mount /, the root partition. Typically, all of those things will be on one drive, and that's usually /dev/sda. However, it's possibly to change all of them. You're probably safe. If you want to be sure, run a test: - shutdown to power off - unplug power from the drive you're going to replace - try to boot If that succeeds, shut down again and go ahead with the replacement. If it fails, you need to trace the boot process above and find out what's on the drive you're replacing, and arrange for that to be changed or copied. Thanks for the reply. The OS is on dev/sda. The disk I changing is /dev/sdc I think we're assuming that you have something better than /dev/sdaX in your /etc/fstab, UUIDs or LABELs. With modern PCs, you can be surprised by how these device names are assigned. Cheers, David. Many thanks to those have answered my cry for a 'sanity check' It has become obvious to me that I am having problems. Before I elaborate, I am using the UUID's for the Drives. Here is my fstab: # /etc/fstab: static file system information. # # Use 'blkid' to print the universally unique identifier for a # device; this may be used with UUID= as a more robust way to name devices # that works even if disks are added and removed. See fstab(5). # # # / was on /dev/sda1 during installation UUID=ce25f0e1-610d-4030-ab47-129cd47d974e / ext4 errors=remount-ro 0 1 # swap was on /dev/sda5 during installation UUID=a8f6dc7e-13f1-4495-b68a-27886d386db0 noneswap sw 0 0 /dev/sr0/media/cdrom0 udf,iso9660 user,noauto 0 0 UUID=900b5f0b-4f3d-4a64-8c91-29aee4c6fd07 /sdb1 ext4 errors=remount-ro 0 1 UUID=d65867da-c658-4e35-928c-9dd2d6dd5742 /sdc1 ext4 errors=remount-ro 0 1 UUID=007c1f16-34a4-438c-9d15-e3df601649ba /sdc2 ext4 errors=remount-ro 0 1 And I have the corresponding mount points. Now, as to what is happening. Before disconnection the power to the drives, I edited out their lines in fstab. I disconnecting the power to sdb and sdc and started the computer. It booted for a few lines until it encountered the line starting with 'start job fgfor device disk by . . .' (at least that what i jotted down). then t\iot Then it through the three HD's, two of which had the power unplugged) for 1 minute and 30 seconds and then went on to tell me that I could log on as root or ctrl-D to continue. Ctrl-D didn't work so I logged oh as root At that point I did 'journalctl -xb and got 1237 lines which were meaningless to me. startx got me to the Root Desktop. The only option open to me at that point was to logout as root, the options of restart and shutdown were grayed out as being unavailable. At this point I admitted defeat did 'shutdown -h now' in a terminal and put the system back in its original state. Obviously, I'm missing something! -- Stephen P. Molnar, Ph.D. Consultant www.molecular-modeling.net (614)312-7528 (c) Skype: smolnar1
