lvm-3.3 problem with sierra

[Comer Duncan]

I tried to follow the upgrade procedure and eventually got the complaint
that lvm-3.3 is not supported. I'm attaching the log file and ask for
 advice about ways around this obstacle. Thanks for your help!

Comer


Sierralogfile
Description: Binary data
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Re: use of cpus in building

[Comer Duncan]

Thanks Justin for the perspective!

This 'thread' has helped me a lot in understanding some aspects of the ins
and outs of using more cores and more threads.

Comer

On Wed, May 25, 2016 at 6:07 PM, Justin C. Walker  wrote:

>
> On May 25, 2016, at 14:42 , Adam Dershowitz wrote:
>
> >
> >
> >
> >> On May 25, 2016, at 5:25 PM, Brandon Allbery 
> wrote:
> >>
> >> On Wed, May 25, 2016 at 5:22 PM, Christopher Jones <
> jon...@hep.phy.cam.ac.uk > wrote:
> >> you don’t. Its automatic for the ports that allow it.
> >>
> >> And this is also true, if that was not clear. Using multiple cores is
> *on by default*. You are already getting it, unless you at some point in
> the past overrode buildmakejobs in macports.conf.
> >>
> >> --
> >
> >
> > You can also manually change it for a single install, for example by
> using build.jobs.  Such as:
> > sudo port install port_whatever_name build.jobs=4
> > and then, for that specific install it will attempt to use 4 cores.
> This can be handy to reduce the number of cores used, from the default, so
> that you can do other things on the machine while building.
>
> FWIW, you can also increase the "thread count" because each core in modern
> Macs provide two "hyperthreads" per core.  It's almost like getting two
> cores per core, but there are various architectural limitations in getting
> "full throttle" performance (memory bandwidth, ...).
>
> Also, to see this in action, you can use the Activity Monitor, and invoke
> "Window -> Floating CPU Window -> {Horizontal, Vertical, None}".  This
> gives you a sort of histogram view of per-hyperthread activity.
>
> I regularly build SageMath on Macs, and usually max out the thread count.
> There can be issues with this.  I've had my systems tie themselves up in
> what appear to be resource knots, but I've never tracked down the real
> cause (the apps I use to see what goes on get stalled when this happens).
> Sometimes the system doesn't recover, but mostly, it does.
>
> HTH
>
> Justin
>
> --
> Justin C. Walker, Curmudgeon-At-Large
> Institute for the Enhancement of the Director's Income
> 
> Experience is what you get
>   when you don't get what you want.
> 
>
>
>
>
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Re: use of cpus in building

[Comer Duncan]

Thanks! I like this option for those builds I do as a one-off.

Comer

On Wednesday, May 25, 2016, Adam Dershowitz  wrote:

>
>
>
> On May 25, 2016, at 5:25 PM, Brandon Allbery  > wrote:
>
> On Wed, May 25, 2016 at 5:22 PM, Christopher Jones <
> jon...@hep.phy.cam.ac.uk
> > wrote:
>>
>> you don’t. Its automatic for the ports that allow it.
>
>
> And this is also true, if that was not clear. Using multiple cores is *on
> by default*. You are already getting it, unless you at some point in the
> past overrode buildmakejobs in macports.conf.
>
> --
>
>
>
> You can also manually change it for a single install, for example by using
> build.jobs.  Such as:
> sudo port install port_whatever_name build.jobs=4
> and then, for that specific install it will attempt to use 4 cores.  This
> can be handy to reduce the number of cores used, from the default, so that
> you can do other things on the machine while building.
>
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Re: use of cpus in building

[Comer Duncan]

Ok. Thanks for the info!

Comer

On Wednesday, May 25, 2016, Brandon Allbery  wrote:

> On Wed, May 25, 2016 at 5:22 PM, Christopher Jones <
> jon...@hep.phy.cam.ac.uk
> > wrote:
>>
>> you don’t. Its automatic for the ports that allow it.
>
>
> And this is also true, if that was not clear. Using multiple cores is *on
> by default*. You are already getting it, unless you at some point in the
> past overrode buildmakejobs in macports.conf.
>
> --
> brandon s allbery kf8nh   sine nomine
> associates
> allber...@gmail.com 
>  ballb...@sinenomine.net
> 
> unix, openafs, kerberos, infrastructure, xmonad
> http://sinenomine.net
>
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Re: use of cpus in building

[Comer Duncan]

Hi Brandon,

So, where to I set 'make -j 4' so I get ports to try with 4 cores?

Comer

On Wed, May 25, 2016 at 5:03 PM, Brandon Allbery 
wrote:

> On Wed, May 25, 2016 at 5:00 PM, Comer Duncan 
> wrote:
>
>> I am wondering whether the macports build system automatically uses as
>> many cpus as are installed?  I have a macbook pro with 4 cores and would
>> hope I can help speed up builds by making all four cores be used.  Am I
>> dreaming?
>
>
> MacPorts does builds with "make -j" (defaulting to one job per core)
> except where ports specifically override it because they are known to not
> build correctly in parallel.
>
> --
> brandon s allbery kf8nh   sine nomine
> associates
> allber...@gmail.com
> ballb...@sinenomine.net
> unix, openafs, kerberos, infrastructure, xmonad
> http://sinenomine.net
>
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use of cpus in building

[Comer Duncan]

I am wondering whether the macports build system automatically uses as many
cpus as are installed?  I have a macbook pro with 4 cores and would hope I
can help speed up builds by making all four cores be used.  Am I dreaming?

Thanks for your help.

Comer
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Re: problem updating pypy

[Comer Duncan]

Hi Carlo,

Thanks a lot. The uninstallation of pypy 4 and then installation of pypy 5
worked!

Comer

On Sat, Mar 12, 2016 at 5:28 PM, Carlo Tambuatco 
wrote:

> I had a similar issue. Are you going from 4.x to 5? I uninstalled 4 and
> did a clean install of 5.
>
> Sent from my iPod
>
> On Mar 12, 2016, at 4:13 PM, Comer Duncan  wrote:
>
> I have issued:  sudo port update pypy
>
> and pretty quickly got back the following in the main.log:
>
> version:1
> :msg:main --->  Computing dependencies for pypy:info:main .:debug:main
> pypy has no conflicts
> :debug:main Searching for dependency: pkgconfig
> :debug:main Found Dependency: receipt exists for pkgconfig
> :debug:main Searching for dependency: libffi
> :debug:main Found Dependency: receipt exists for libffi
> :debug:main Searching for dependency: sqlite3
> :debug:main Found Dependency: receipt exists for sqlite3
> :debug:main Searching for dependency: bzip2
> :debug:main Found Dependency: receipt exists for bzip2
> :debug:main Searching for dependency: openssl
> :debug:main Found Dependency: receipt exists for openssl
> :debug:main Searching for dependency: gettext
> :debug:main Found Dependency: receipt exists for gettext
> :debug:main Searching for dependency: ncurses
> :debug:main Found Dependency: receipt exists for ncurses
> :msg:main
> :debug:main Executing org.macports.main (pypy)
> :debug:main changing euid/egid - current euid: 0 - current egid: 0
> :debug:main egid changed to: 20
> :debug:main euid changed to: 501
> :debug:main Skipping completed org.macports.archivefetch (pypy)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.fetch (pypy)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.checksum (pypy)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.extract (pypy)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.patch (pypy)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:main Skipping completed org.macports.configure (pypy)
> :debug:main Privilege de-escalation not attempted as not running as root.
> :debug:build build phase started at Sat Mar 12 16:05:16 EST 2016
> :notice:build --->  Building pypy
> :debug:build Executing org.macports.build (pypy)
> :debug:build Environment:
> CC_PRINT_OPTIONS='YES'
>
> CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work/.CC_PRINT_OPTIONS'
> CFLAGS='-arch x86_64 -I/opt/local/include'
> CPATH='/opt/local/include'
> LDFLAGS='-arch x86_64 -L/opt/local/lib -Wl,-headerpad_max_install_names'
> LIBRARY_PATH='/opt/local/lib'
> MACOSX_DEPLOYMENT_TARGET='10.10'
> PYPY_CC='/usr/bin/clang'
> PYPY_LOCALBASE='/opt/local'
>
> PYPY_USESSION_DIR='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work'
> :debug:build Assembled command: 'cd
> "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work/pypy-5.0.0-src/pypy/goal"
> && arch -x86_64 /opt/local/lib/pypy/pypy ../../rpython/bin/rpython --batch
> --verbose --cc=/usr/bin/clang --opt=jit --make-jobs=8 targetpypystandalone'
> :debug:build Executing command line:  cd
> "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work/pypy-5.0.0-src/pypy/goal"
> && arch -x86_64 /opt/local/lib/pypy/pypy ../../rpython/bin/rpython --batch
> --verbose --cc=/usr/bin/clang --opt=jit --make-jobs=8 targetpypystandalone
> :info:build dyld: Symbol not found: _SSLv2_method
> :info:build   Referenced from: /opt/local/lib/pypy//libpypy-c.dylib
> :info:build   Expected in: /opt/local/lib/libssl.1.0.0.dylib
> :info:build  in /opt/local/lib/pypy//libpypy-c.dylib
> :info:build sh: line 1: 76516 Trace/BPT trap: 5   arch -x86_64
> /opt/local/lib/pypy/pypy ../../rpython/bin/rpython --batch --verbose
> --cc=/usr/bin/clang --opt=jit --make-jobs=8 targetpypystandalone
> :info:build Command failed:  cd
> "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work/pypy-5.0.0-src/pypy/goal"
> && arch -x86_64 /opt/local/lib/pypy/pypy ../../rpython/bin/rpython --batch
> --verbose --cc=/usr/bin/clang --opt=jit --make-jobs=8 targetpypystandalone
> :info:b

problem updating pypy

[Comer Duncan]

I have issued:  sudo port update pypy

and pretty quickly got back the following in the main.log:

version:1
:msg:main --->  Computing dependencies for pypy:info:main .:debug:main pypy
has no conflicts
:debug:main Searching for dependency: pkgconfig
:debug:main Found Dependency: receipt exists for pkgconfig
:debug:main Searching for dependency: libffi
:debug:main Found Dependency: receipt exists for libffi
:debug:main Searching for dependency: sqlite3
:debug:main Found Dependency: receipt exists for sqlite3
:debug:main Searching for dependency: bzip2
:debug:main Found Dependency: receipt exists for bzip2
:debug:main Searching for dependency: openssl
:debug:main Found Dependency: receipt exists for openssl
:debug:main Searching for dependency: gettext
:debug:main Found Dependency: receipt exists for gettext
:debug:main Searching for dependency: ncurses
:debug:main Found Dependency: receipt exists for ncurses
:msg:main
:debug:main Executing org.macports.main (pypy)
:debug:main changing euid/egid - current euid: 0 - current egid: 0
:debug:main egid changed to: 20
:debug:main euid changed to: 501
:debug:main Skipping completed org.macports.archivefetch (pypy)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.fetch (pypy)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.checksum (pypy)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.extract (pypy)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.patch (pypy)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.configure (pypy)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:build build phase started at Sat Mar 12 16:05:16 EST 2016
:notice:build --->  Building pypy
:debug:build Executing org.macports.build (pypy)
:debug:build Environment:
CC_PRINT_OPTIONS='YES'
CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work/.CC_PRINT_OPTIONS'
CFLAGS='-arch x86_64 -I/opt/local/include'
CPATH='/opt/local/include'
LDFLAGS='-arch x86_64 -L/opt/local/lib -Wl,-headerpad_max_install_names'
LIBRARY_PATH='/opt/local/lib'
MACOSX_DEPLOYMENT_TARGET='10.10'
PYPY_CC='/usr/bin/clang'
PYPY_LOCALBASE='/opt/local'
PYPY_USESSION_DIR='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work'
:debug:build Assembled command: 'cd
"/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work/pypy-5.0.0-src/pypy/goal"
&& arch -x86_64 /opt/local/lib/pypy/pypy ../../rpython/bin/rpython --batch
--verbose --cc=/usr/bin/clang --opt=jit --make-jobs=8 targetpypystandalone'
:debug:build Executing command line:  cd
"/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work/pypy-5.0.0-src/pypy/goal"
&& arch -x86_64 /opt/local/lib/pypy/pypy ../../rpython/bin/rpython --batch
--verbose --cc=/usr/bin/clang --opt=jit --make-jobs=8 targetpypystandalone
:info:build dyld: Symbol not found: _SSLv2_method
:info:build   Referenced from: /opt/local/lib/pypy//libpypy-c.dylib
:info:build   Expected in: /opt/local/lib/libssl.1.0.0.dylib
:info:build  in /opt/local/lib/pypy//libpypy-c.dylib
:info:build sh: line 1: 76516 Trace/BPT trap: 5   arch -x86_64
/opt/local/lib/pypy/pypy ../../rpython/bin/rpython --batch --verbose
--cc=/usr/bin/clang --opt=jit --make-jobs=8 targetpypystandalone
:info:build Command failed:  cd
"/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/work/pypy-5.0.0-src/pypy/goal"
&& arch -x86_64 /opt/local/lib/pypy/pypy ../../rpython/bin/rpython --batch
--verbose --cc=/usr/bin/clang --opt=jit --make-jobs=8 targetpypystandalone
:info:build Exit code: 133
:error:build org.macports.build for port pypy returned: command execution
failed
:debug:build Error code: CHILDSTATUS 76515 133
:debug:build Backtrace: command execution failed
while executing
"system -nice 0 $fullcmdstring"
("eval" body line 1)
invoked from within
"eval system $notty [image: nice \]fullcmdstring"
invoked from within
"command_exec build"
(procedure "portbuild::build_main" line 8)
invoked from within
"portbuild::build_main org.macports.build"
("eval" body line 1)
invoked from within
"eval $procedure $targetname"
:info:build Warning: targets not executed for pypy: org.macports.install
org.macports.build org.macports.destroot
:notice:build Please see the log file for port pypy for details:

/opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_pypy/pypy/main.log

which mentions :info:build d

clang-format?

[Comer Duncan]

Is clang-format available from macports?

Thanks.

Comer
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Status of gfortran?

[Comer Duncan]

Can someone please tell me the status of gfortran for yosemite?  I am
having not luck in finding gfortran on macports.  There is g95 but I have
not installed it. Looking around a bit it seems that gcc apparently
compiles fortran code?  That is gnu cc.  But what is its relation to
macports ports?  I have xcode 6 installed but can not seem to get fortran
code to compile.  Thanks for any pointers!

Comer
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problem with build

[Comer Duncan]

--->  Fetching archive for apple-gcc42
--->  Attempting to fetch apple-gcc42-5666.3_14.darwin_14.x86_64.tbz2 from
http://packages.macports.org/apple-gcc42
--->  Attempting to fetch apple-gcc42-5666.3_14.darwin_14.x86_64.tbz2 from
http://lil.fr.packages.macports.org/apple-gcc42
--->  Attempting to fetch apple-gcc42-5666.3_14.darwin_14.x86_64.tbz2 from
http://mse.uk.packages.macports.org/sites/packages.macports.org/apple-gcc42
--->  Computing dependencies for apple-gcc42
--->  Fetching distfiles for apple-gcc42
Error: apple-gcc42 is not supported on Yosemite or later.
Error: org.macports.fetch for port apple-gcc42 returned: unsupported
platform
Please see the log file for port apple-gcc42 for details:

/opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_apple-gcc42/apple-gcc42/main.log
Error: Unable to upgrade port: 1
To report a bug, follow the instructions in the guide:
http://guide.macports.org/#project.tickets

And here is the log file:

version:1
:msg:archivefetch --->  Computing dependencies for
apple-gcc42:info:archivefetch .:debug:archivefetch Searching for
dependency: ld64
:debug:archivefetch Found Dependency: receipt exists for ld64
:debug:archivefetch Searching for dependency: cctools
:debug:archivefetch Found Dependency: receipt exists for cctools
:msg:archivefetch
:debug:main Executing org.macports.main (apple-gcc42)
:debug:main changing euid/egid - current euid: 0 - current egid: 0
:debug:main egid changed to: 20
:debug:main euid changed to: 501
:debug:fetch fetch phase started at Sun Oct 19 16:49:28 EDT 2014
:notice:fetch --->  Fetching distfiles for apple-gcc42
:debug:fetch Executing proc-pre-org.macports.fetch-fetch-0
:error:fetch apple-gcc42 is not supported on Yosemite or later.
:error:fetch org.macports.fetch for port apple-gcc42 returned: unsupported
platform
:debug:fetch Error code: NONE
:debug:fetch Backtrace: unsupported platform
while executing
"proc-pre-org.macports.fetch-fetch-0 org.macports.fetch"
("eval" body line 1)
invoked from within
"eval $pre $targetname"
:info:fetch Warning: targets not executed for apple-gcc42:
org.macports.destroot org.macports.fetch org.macports.checksum
org.macports.extract org.macports.patch org.macports.configure
org.macports.build
:notice:fetch Please see the log file for port apple-gcc42 for details:

/opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_apple-gcc42/apple-gcc42/main.log

Note that I have installed the darwin-14 version of macports from the
macports web page and then did a selfupdate and then a upgrade outdated.
The builds went for quite a while without apparent problems until the
above.

Can you please advise as to what I need/might do next?

Thanks very much for your help!

Comer
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Yosemite upgrade

[Comer Duncan]

Yesterday I installed Yosemite but have not yet done either selfupdate or
upgrade outdated.  Before I do that I am wondering whether there are any
recommendations as to whether it is too early to upgrade since perhaps
macports code developers need some time to get essentials ready for such?
I sort of expect that the macports developers and maintainers had access to
Yosemite earlier than those who waited for the official release to be made
available, so maybe I don't need to be timid about proceding. What do you
guys think?

Thanks.

Comer
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Fwd: can't upgrade py27-zmq

[Comer Duncan]

Sorry, I forgot to include the list when replying to Brandon.  Here is what
I sent.

-- Forwarded message --
From: Comer Duncan 
Date: Mon, Apr 14, 2014 at 3:30 PM
Subject: Re: can't upgrade py27-zmq
To: Brandon Allbery 


Thanks Brandon.  Here is what I see:

comermacpro:site-packages comerduncan$ cd
python_dateutil-2.2-py2.7.egg-info/
comermacpro:python_dateutil-2.2-py2.7.egg-info comerduncan$ ls
total 48
-rw---  1 root  wheel  970 Mar 27 18:21 PKG-INFO
-rw---  1 root  wheel  563 Mar 27 18:21 SOURCES.txt
-rw---  1 root  wheel1 Mar 27 18:21 dependency_links.txt
-rw---  1 root  wheel3 Mar 27 18:21 requires.txt
-rw---  1 root  wheel9 Mar 27 18:21 top_level.txt
-rw---  1 root  wheel1 Nov  1 04:29 not-zip-safe
comermacpro:python_dateutil-2.2-py2.7.egg-info comerduncan$ cat
top_level.txt
cat: top_level.txt: Permission denied
comermacpro:python_dateutil-2.2-py2.7.egg-info comerduncan$ sudo cat
top_level.txt
Password:
dateutil

So, how come root rw is not enough for sudo??  If that is not the likely
thing, then what might I do next?

Thanks.

Comer


On Mon, Apr 14, 2014 at 3:17 PM, Brandon Allbery wrote:

> Please keep discussion on the list.
>
> On Mon, Apr 14, 2014 at 3:08 PM, Comer Duncan wrote:
>
>> Ok, am attaching the main.log file.
>>
>
> :info:build stream = open(path, 'rb')
> :info:build IOError: [Errno 13] Permission denied:
> '/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/python_dateutil-2.2-py2.7.egg-info/top_level.txt'
>
> Somehow the named file is not readable.
>
> --
> brandon s allbery kf8nh   sine nomine
> associates
> allber...@gmail.com
> ballb...@sinenomine.net
> unix, openafs, kerberos, infrastructure, xmonad
> http://sinenomine.net
>
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can't upgrade py27-zmq

[Comer Duncan]

I have today run across a failure to update py27-zmq.  The output seems
non-instructive so I am hoping to get some help.  I paste the output of my
attempt here:

comermacpro:MarkFiniteDiffDerivativs comerduncan$ sudo port upgrade py27-zmq
--->  Scanning binaries for linking errors: 100.0%
--->  Found 12 broken file(s), matching files to ports
--->  Found 1 broken port(s), determining rebuild order
--->  Rebuilding in order
 py27-zmq @14.1.1
--->  Computing dependencies for py27-zmq
--->  Cleaning py27-zmq
--->  Scanning binaries for linking errors: 100.0%
--->  Found 12 broken file(s), matching files to ports
--->  Found 1 broken port(s), determining rebuild order
--->  Rebuilding in order
 py27-zmq @14.1.1
--->  Computing dependencies for py27-zmq
--->  Fetching distfiles for py27-zmq
--->  Verifying checksums for py27-zmq
--->  Extracting py27-zmq
--->  Configuring py27-zmq
--->  Building py27-zmq
Error: org.macports.build for port py27-zmq returned: command execution
failed
Please see the log file for port py27-zmq for details:

/opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_python_py-zmq/py27-zmq/main.log
Error: Unable to upgrade port: 1
Error rebuilding py27-zmq
while executing
"error "Error rebuilding $portname""
(procedure "revupgrade_scanandrebuild" line 382)
invoked from within
"revupgrade_scanandrebuild broken_port_counts $opts"
(procedure "macports::revupgrade" line 5)
invoked from within
"macports::revupgrade $opts"
(procedure "action_revupgrade" line 2)
invoked from within
"action_revupgrade $action $portlist $opts"
(procedure "action_upgrade" line 25)
invoked from within
"$action_proc $action $portlist [array get global_options]"
(procedure "process_cmd" line 93)
invoked from within
"process_cmd $remaining_args"
invoked from within
"if { [llength $remaining_args] > 0 } {

# If there are remaining arguments, process those as a command
set exit_status [process_cmd $remaining..."
(file "/opt/local/bin/port" line 4857)

Thanks for your help!!

Comer
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database?

[Comer Duncan]

Just curious.  What's the story about the absence of the ports database for
a couple of days it seems?

Thanks.

Comer
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Lmod for macports?

[Comer Duncan]

I have in the past found that lmod (
http://sourceforge.net/projects/lmod/files/) is quite useful for managing
environments and associated software needed for a particular project or
projects.  However, I have only used it in a supercomputer environment. I
wonder whether some of you may know about lmod and have developed a port
for it under mavericks?  I have searched for lmod and modules but do not
seem to find anything which I can be sure represents a port of it. So, can
those in the know please let me know about the present status, if  any, of
a port of lmod?

Thanks.

Comer
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Re: MacVim?

[Comer Duncan]

Brian,

Thanks.  mvim works as does open -a MacVim.

Comer


On Mon, Jan 13, 2014 at 11:39 AM, Brian Wisti  wrote:

> Hi Comer,
>
> I think the command line executable you're looking for is `mvim`.
> `open -a MacVim` might also work, but I'm in front of the stupid work
> machine so I cannot verify this.
>
>
> Kind Regards,
> Brian Wisti
> http://randomgeekery.org
>
>
> On Mon, Jan 13, 2014 at 8:36 AM, Comer Duncan 
> wrote:
> > Today I have installed the macports flavor of vim. It seems fine.  Next I
> > tried to install vim-app but port told me that vim-app does not work and
> I
> > should rather install MacVim.  So, I did or rather think I did.  When I
> > issue
> >
> > comermacpro:~ comerduncan$ port installed vim MacVim
> >
> > The following ports are currently installed:
> >
> >   MacVim @7.4.snapshot72_0+huge (active)
> >
> >   vim @7.4.052_0+huge (active)
> >
> >
> > However only vim runs and is in /opt/local/bin. MacVim is not there.  So
> my
> > question is where is it?  Name is different than listed by port
> installed?
> > I tried gvim but nothing is there. Is there a problem with MacVim on
> > Mavericks, which I am running?
> >
> > Thanks for suggestions.
> >
> > Comer
> >
> >
> > ___
> > macports-users mailing list
> > macports-users@lists.macosforge.org
> > https://lists.macosforge.org/mailman/listinfo/macports-users
> >
>
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MacVim?

[Comer Duncan]

Today I have installed the macports flavor of vim. It seems fine.  Next I
tried to install vim-app but port told me that vim-app does not work and I
should rather install MacVim.  So, I did or rather think I did.  When I
issue

comermacpro:~ comerduncan$ port installed vim MacVim

The following ports are currently installed:

  MacVim @7.4.snapshot72_0+huge (active)

  vim @7.4.052_0+huge (active)


However only vim runs and is in /opt/local/bin. MacVim is not there.  So my
question is where is it?  Name is different than listed by port installed?
 I tried gvim but nothing is there. Is there a problem with MacVim on
Mavericks, which I am running?

Thanks for suggestions.

Comer
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python24

[Comer Duncan]

Is it safe to remove python24?  I did a

port depend python24

and get:

py24-ctypes depends on python24

py24-ipython depends on python24

py24-markupsafe depends on python24

py24-numpy depends on python24

py24-readline depends on python24

py24-roman depends on python24

py24-setuptools depends on python24


So I take it that only the py24- items depend on python24. Since I do
not (knowlingly) use python 2.4*  I am wondering whether I can safely just
nuke it all?


Thanks for advice.


Comer
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problem upgrading py27-numpy

[Comer Duncan]

Today I did another selfupdate and then port upgrade outdated.  Here is the
list of outdated:

py-game1.9.1_6 < 1.9.1_7

py24-ipython   0.10.2_0 < 0.10.2_1

py27-cairo 1.10.0_2 < 1.10.0_3

py27-game  1.9.1_6 < 1.9.1_7

py27-matplotlib1.3.1_1 < 1.3.1_2

py27-numpy 1.8.0_0 < 1.8.0_2

py27-opengl-accelerate 3.0.2_0 < 3.0.2_1

It then first worked on py27-numpy.  After a little while the job aborted.
 I have attached the log file. It seems that py27-numpy does not exist.
This occurs near the beginning of the log file.  Is there a known problem
with the existence of the needed file? Here is the piece of the log file
which seems relevant:


:info:archivefetch --->  py27-numpy-1.8.0_2.darwin_13.x86_64.tbz2 doesn't
seem to exist in /opt/local/var/macports/incoming/verified

:msg:archivefetch --->  Attempting to fetch
py27-numpy-1.8.0_2.darwin_13.x86_64.tbz2 from
http://packages.macports.org/py27-numpy

:debug:archivefetch Fetching archive failed:: The requested URL returned
error: 404 Not Found

:msg:archivefetch --->  Attempting to fetch
py27-numpy-1.8.0_2.darwin_13.x86_64.tbz2 from
http://mse.uk.packages.macports.org/sites/packages.macports.org/py27-numpy

:debug:archivefetch Fetching archive failed:: The requested URL returned
error: 404 Not Found

:msg:archivefetch --->  Attempting to fetch
py27-numpy-1.8.0_2.darwin_13.x86_64.tbz2 from
http://lil.fr.packages.macports.org/py27-numpy

:debug:archivefetch Fetching archive failed:: The requested URL returned
error: 404 Not Found


Does anyone have suggestions on what to do to further sort this out?


Thanks.


Comer


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logfileportpy27numpyfailure.gz
Description: GNU Zip compressed data
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all variants which use x11?

[Comer Duncan]

How do I find the list of currently installed ports which use x11 rather
than quartz? I have  a bunch of ports which still specify +x11 and I want
to remove them, reinstall with +quartz as a uniform option.

Thanks.

Comer

 *Comer Duncan* *, Bowling Green State University 1970-2005*
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another problem

[Comer Duncan]

I am in the middle of putting back the ports after going through the
migration instructions.  I already did a source install with no errors.
 Below is what I see when gcc44 is attempted.

Is there a problem with java?

Thanks.

Comer


--->  Computing dependencies for gcc44

--->  Fetching archive for gcc44

--->  Attempting to fetch gcc44-4.4.7_8.darwin_13.x86_64.tbz2 from
http://packages.macports.org/gcc44

--->  Attempting to fetch gcc44-4.4.7_8.darwin_13.x86_64.tbz2 from
http://mse.uk.packages.macports.org/sites/packages.macports.org/gcc44

--->  Attempting to fetch gcc44-4.4.7_8.darwin_13.x86_64.tbz2 from
http://lil.fr.packages.macports.org/gcc44

--->  Fetching distfiles for gcc44

--->  Verifying checksums for gcc44

--->  Extracting gcc44

Waiting for lock on
/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_gcc44/gcc44/work/.macports.gcc44.state

--->  Applying patches to gcc44

Waiting for lock on
/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_gcc44/gcc44/work/.macports.gcc44.state

--->  Configuring gcc44

Error: org.macports.configure for port gcc44 returned: configure failure:
command execution failed

Please see the log file for port gcc44 for details:


/opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_gcc44/gcc44/main.log

/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_gcc44/gcc44/work/gcc-4.4.7/libjava/classpath/lib/java/security/cert/CertificateExpiredException.class:
no such file or directory

while executing

"fs-traverse myfile ${path} {

lchown $myfile $user

}"

(procedure "chown" line 5)

invoked from within

"chown  ${path} ${macportsuser}"

(procedure "chownAsRoot" line 17)

invoked from within

"chownAsRoot $subbuildpath"

(procedure "open_statefile" line 37)

invoked from within

"open_statefile"

(procedure "check_variants" line 29)

invoked from within

"check_variants install"

invoked from within

"$workername eval check_variants $target"

(procedure "mportexec" line 7)

invoked from within

"mportexec $workername $install_target"

Unable to execute target 'install' for port 'gcc44':
/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_gcc44/gcc44/work/gcc-4.4.7/libjava/classpath/lib/java/security/cert/CertificateExpiredException.class:
no such file or directory

while executing

"install_ports $operationList"

(file "./restore_ports.tcl" line 269)


The file
/opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_lang_gcc44/gcc44/main.log
does not exist.

Seems as though something bad is wrong.




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 comer.dun...@gmail.com
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problem with removal

[Comer Duncan]

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ports upgrade outdated problem

[Comer Duncan]

I upgraded to Mavericks a couple of days ago. I installed Xcode and command
line tools.  Today I am trying to run my little script to occasionally
upgrade outdated stuff.  Here is what I tried:

comermacpro:~ comerduncan$ bin/portupdateupgrade

+

First doing a selfupdate

--->  Updating MacPorts base sources using rsync

MacPorts base version 2.2.0 installed,

MacPorts base version 2.2.0 downloaded.

--->  Updating the ports tree

--->  MacPorts base is already the latest version


The ports tree has been updated. To upgrade your installed ports, you
should run

  port upgrade outdated

+

Next do an upgrade outdated

--->  Fetching archive for gperf

--->  Attempting to fetch gperf-3.0.4_2.darwin_13.x86_64.tbz2 from
http://packages.macports.org/gperf

--->  Attempting to fetch gperf-3.0.4_2.darwin_13.x86_64.tbz2 from
http://mse.uk.packages.macports.org/sites/packages.macports.org/gperf

--->  Attempting to fetch gperf-3.0.4_2.darwin_13.x86_64.tbz2 from
http://lil.fr.packages.macports.org/gperf

--->  Fetching distfiles for gperf

--->  Verifying checksums for gperf

--->  Extracting gperf

Error: org.macports.extract for port gperf returned: command execution
failed

Please see the log file for port gperf for details:


/opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_devel_gperf/gperf/main.log

Error: Unable to upgrade port: 1

To report a bug, follow the instructions in the guide:

http://guide.macports.org/#project.tickets
I noted that in the log file there is a complaint that /bin/usr/gnutar does
not exist.  I am wondering whether this is part of the problem?  I have not
noted whether gnutar existed prior to the upgrade to Mavericks...  I am
attaching the log file.

Can someone please help?  Thanks very much!

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main.log
Description: Binary data
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Question about a part of tex-live

[Comer Duncan]

I have recently noted that I need to add revtex4.1 to the tex-live
distribution I installed from macports.  Does anyone know how I can do
this? I am afraid that if I just copy the revtex4.1 distribution to
/opt/local/share/texmf-texlive/tex/latex I may well screw up by not making
the permissions right and not appropriately adding revtex4.1 to the
database.

Thanks for any useful pointers!

Comer
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question about geany

[Comer Duncan]

I have geany installed and when I use it, the main window is permanently
attached to the upper left corner of the desktop.  It is thus a bit strange
to use as I often need to resize the main window.  Is this a known
'feature'?

Thanks for your help.

Comer
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pygame

[Comer Duncan]

I am in the process of trying to begin learning how to use pygame. I have
installed py-game 1.9.1 on my Macbookpro running Mountain Lion. Maybe this
sounds silly but  I am wanting to have access to example pygame files so I
can get some idea of the lay of the land, etc. While I could download
pygame's source and then get access to its examples, I wonder whether
macports includes examples directory with its install?  I can not seem to
locate such on my disk.  Am I dreaming to want examples, or is it
unreasonable to have additional software beyond libs and executables when
there are executables?

Thanks for your help.

Comer
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question about frequency of updates

[Comer Duncan]

Hi,

I am wondering what the gurus say is a reasonable update interval for
macports?  I  seem to forget to do it and then have to get through the
update process, which sometimes takes quite a while.

Any thoughts are appreciated.

Comer
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Re: question about zmq

[Comer Duncan]

Hi,

Thanks for the comments.


> Can you please provide the output of
> port echo dependents:zmq22
> and
> port -v installed zmq
>


port echo dependents:zmq22

Can't map the URL 'dependents:zmq22' to a port description file ("Can't
parse url dependents:zmq22").
Please verify that the directory and portfile syntax are correct.
Error: Can't open URL 'dependents:zmq22' as a port

port -v installed zmq

The following ports are currently installed:
  zmq @2.2.0_0 platform='darwin 12' archs='x86_64'

So, the first query gives a strange response does it not? And the second
confirms that zmp 2.2.0 is installed.  I am running on a macbook pro under
Mountain Lion for several months now.

I can surely uninstall zmq22. The only application that I am aware which
needs zmq is the development version of ipython.  ipython is important to
me, so I don't want to make a change which will cause problems when the
next git pull is done (I do that every week or so).  I looked on the
ipython.org page for zmq to see whether they make explicit reference to a
version of zmq and found  none. So I looked at the zmq page and see that
3.2 is the current stable version.  So I am inclined to nuke zmq22 and
install zmq version 3.2.

Thanks for your help.  Any comments are welcome.

Comer



> You can just uninstall the zmq port unless you specifically need zmq 3.2
> for your development needs.
>
> --
> Clemens Lang
>
>
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question about zmq

[Comer Duncan]

Yesterday I did

sudo port selfupdate and then sudo port upgrade outdated. As usual it took
'forever'. This morning when I checked I see at the end of the output:

Error: Unable to upgrade port: Can't install zmq because conflicting ports
are installed: zmq22

So, then I did:

port search zmq and got:

czmq @1.2.0 (devel, sysutils, net)
High-level C Binding for ØMQ

py-zmq @2.2.0.1 (python, devel, net)
Python bindings for ØMQ

py26-zmq @2.2.0.1 (python, devel, net)
Python bindings for ØMQ

py27-zmq @2.2.0.1 (python, devel, net)
Python bindings for ØMQ

py31-zmq @2.2.0.1 (python, devel, net)
Python bindings for ØMQ

py32-zmq @2.2.0.1 (python, devel, net)
Python bindings for ØMQ

zmq @3.2.0-rc1 (devel, net)
ØMQ (ZeroMQ) lightweight messaging kernel

zmq20 @2.0.11 (devel, net)
ØMQ lightweight messaging kernel, 2.0.x branch

zmq22 @2.2.0 (devel, net)
ØMQ (ZeroMQ) lightweight messaging kernel, 2.2.x branch

So my question is what can I do now?  Which zmq ports are conflicting? Of
the conflicting ones which is preferable over the others. That is, in my
apparent light understanding of using the port command I find the message
quite inadequate to lead me. Can you guys please help?

Thanks very much.

Comer
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trouble with qt4-mac install

[Comer Duncan]

Hi,

I have run against an apparent problem in trying to do an upgrade outdated
for qt4-mac.  Here is what I see

homelap-3:~ comerduncan$ sudo port upgrade outdated
--->  Computing dependencies for qt4-mac
--->  Building qt4-mac

The thing is that this just hangs (after 3 hours I cntrl-C'ed it).  I also
get  an apparent hang with sudo port install qt4-mac.  I have already done
a port selfupdate with the result that the macports base is already at the
latest version. Also, I note that port installed lists qt4-mac
@4.7.4_1+quartz as installed.  So I am wondering why this is occurring?

Thanks for suggestions!

Comer
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Mountain Lion?

[Comer Duncan]

I am wondering what are the implications of the OSX Mountain Lion for
MacPorts?  With the removal of X11 support, is there going to be any
problems with building code?  Can those who know please clue me in?

Thanks for all the great software MacPorts produces!!

Comer Duncan
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help with trouble with pango, etc

[Comer Duncan]

Hi,

I am in the process of installing a set of macport items prior to
installing a big software package on my macbook pro running lion.  I need
the following ports:
szip, gcc46, gsl, hdf5-18 +gcc46 -universal

So far I can not get either szip or gcc46 to install and the reason  seems
connected to pango?  Here is the attempt:

homelap-3:~ comerduncan$ sudo port install szip
Password:
--->  Cleaning szip
--->  Scanning binaries for linking errors: 100.0%
--->  Found 57 broken file(s), matching files to ports
--->  Found 9 broken port(s), determining rebuild order
--->  Rebuilding in order
 pango @1.30.0 +x11
 atk @2.2.0
 gtk2 @2.24.10 +x11
 gtk2-aurora @1.5.1
 libglade2 @2.6.4
 vte @0.28.2 +python27
 geany @0.21
 poppler @0.18.4
 gcc45 @4.5.3
Error: pango: Variant no_x11 conflicts with x11
Error: Unable to open port: Error evaluating variants
Error rebuilding pango
while executing
"error "Error rebuilding $portname""
(procedure "revupgrade_scanandrebuild" line 370)
invoked from within
"revupgrade_scanandrebuild broken_port_counts $opts"
(procedure "macports::revupgrade" line 5)
invoked from within
"macports::revupgrade $opts"
(procedure "action_revupgrade" line 2)
invoked from within
"action_revupgrade $action $portlist $opts"
(procedure "action_target" line 94)
invoked from within
"$action_proc $action $portlist [array get global_options]"
(procedure "process_cmd" line 95)
invoked from within
"process_cmd $remaining_args"
invoked from within
"if { [llength $remaining_args] > 0 } {

# If there are remaining arguments, process those as a command
set exit_status [process_cmd $remaining..."
(file "/opt/local/bin/port" line 4784)

And here is the output of trying to install gcc46:

homelap-3:~ comerduncan$ sudo port install gcc46
--->  Computing dependencies for gcc46
--->  Cleaning gcc46
--->  Scanning binaries for linking errors: 100.0%
--->  Found 57 broken file(s), matching files to ports
--->  Found 9 broken port(s), determining rebuild order
--->  Rebuilding in order
 pango @1.30.0 +x11
 atk @2.2.0
 gtk2 @2.24.10 +x11
 gtk2-aurora @1.5.1
 libglade2 @2.6.4
 vte @0.28.2 +python27
 geany @0.21
 poppler @0.18.4
 gcc45 @4.5.3
Error: pango: Variant no_x11 conflicts with x11
Error: Unable to open port: Error evaluating variants
Error rebuilding pango
while executing
"error "Error rebuilding $portname""
(procedure "revupgrade_scanandrebuild" line 370)
invoked from within
"revupgrade_scanandrebuild broken_port_counts $opts"
(procedure "macports::revupgrade" line 5)
invoked from within
"macports::revupgrade $opts"
(procedure "action_revupgrade" line 2)
invoked from within
"action_revupgrade $action $portlist $opts"
(procedure "action_target" line 94)
invoked from within
"$action_proc $action $portlist [array get global_options]"
(procedure "process_cmd" line 95)
invoked from within
"process_cmd $remaining_args"
invoked from within
"if { [llength $remaining_args] > 0 } {

# If there are remaining arguments, process those as a command
set exit_status [process_cmd $remaining

Can someone please help me get past this barrier?

Your help is much appreciated.

Comer
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