RE: [spctools-discuss] Re: TPP 6.1.0 Release is now available

[Eric Deutsch]

Hi Malcolm, thank you for the corrections, the page is now updated. Let me
know if you find any other problems.



http://tools.proteomecenter.org/wiki/index.php?title=TPP_6.1.0:_Installing_on_Ubuntu_20.04_LTS



Thanks!

Eric





*From:* spctools-discuss@googlegroups.com 
*On Behalf Of *Malcolm Cook
*Sent:* Tuesday, June 7, 2022 7:50 PM
*To:* spctools-discuss 
*Subject:* Re: [spctools-discuss] Re: TPP 6.1.0 Release is now available



Hi David,



Indeed, the svn link I took from these instructions
<http://tools.proteomecenter.org/wiki/index.php?title=TPP_6.1.0:_Installing_on_Ubuntu_20.04_LTS>
is
incorrect (and probably should be amended), while the link you advise (and
appearing above in the announcement) is correct.



BTW - I would offer to amend them myself but am unable to see if I am
allowed to have an account on the wiki - seemingly not.



FWIW - I do now find that downloading and expanding the tarball is many
times faster then using svn, so I will prefer it going forward.

Thanks,



~Malcolm



On Tuesday, June 7, 2022 at 5:53:04 PM UTC-5 David Shteynberg wrote:

Hi Malcolm,



Thanks for your interest in the TPP.

I think your url has a mistake in it.  Please try the following command:



svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6-1-0
<http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0>



Cheers,

-David



On Tue, Jun 7, 2022 at 3:44 PM Malcolm Cook  wrote:

Hi,



I am checking out again from the release_6.1.0 since my `make all` is
problematic, I want to start over, and `make clean` seems perhaps
incomplete in its cleaning.



Alas I encounter this error whose workaround I can not guess:



svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0
svn: E17: URL 'http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0'
doesn't exist



On Tuesday, June 7, 2022 at 12:37:31 AM UTC-5 Luis wrote:

Hi Malcolm,

Thank you for the congrats, and for catching that in our build notes; we
will correct it soon.  In the "Pulling from Sourceforge" section, just
follow the commented-out command instead of the last one:

#svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0
<- this one; remove the leading pound sign

svn checkout 
http://svn.code.sf.net/p/sashimi/code/trunk/trans_proteomic_pipeline
  < not this one



As of tonight, though, the trunk code is still virtually identical to what
is tagged as release_6.1.0, so it should work fine.



Let us know if you run into any other issues.



Thank you for using TPP!

--Luis





On Mon, Jun 6, 2022 at 10:04 PM malcook  wrote:

Congrats on the new release.



You will probably want to modify these instructions
<http://tools.proteomecenter.org/wiki/index.php?title=TPP_6.1.0:_Installing_on_Ubuntu_20.04_LTS>which
still advise to download from trunk.



I just followed  them.



Should I still expect this to work satisfactorily?



Thanks

On Friday, June 3, 2022 at 3:23:19 AM UTC-5 Luis wrote:

Announcing the official release of Trans-Proteomic Pipeline (TPP) 6.1.0
"Parhelion"

We are proud to offer a major update to the Trans-Proteomic Pipeline (TPP)
software, release 6.1.0.  The software is available for Windows as well as
Linux from all the usual locations (please see the section below, "Getting
the TPP Software").  Most users are recommended to use the Windows
installer, which installs and configures TPP and other required software,
such as a web server.  For advanced users who need to customize TPP, or for
those who run on Linux or OS X, the source code can be downloaded.


*Release Notes *
Release notes on the most important new features, changes, and known issues
are available at:

http://tools.proteomecenter.org/wiki/index.php?title=TPP:6.1.0_Release_Notes


*Getting the TPP Software*

Download the TPP version 6.1.0 native windows installer from the Sashimi
SourceForge project file release page:

 https://sourceforge.net/projects/sashimi/files/Trans-Proteomic Pipeline
(TPP)/TPP v6.1 (Parhelion) rev 0/


Everyone is encouraged to read and contribute to our wiki, at
  http://tools.proteomecenter.org/wiki/

For guides to installing and using our software, please see our wiki:
  http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP

For downloading the source code, please go to the following link:
  http://sourceforge.net/projects/sashimi/files/  and find the 6.1.0 source
code .zip package
or, check out the code directly from svn:
  svn export svn://svn.code.sf.net/p/sashimi/code/tags/release_6-1-0

For building from source, please refer to the README and INSTALL files in
src/ directory of TPP as well as the wiki.


*Acknowledgements*
The TPP Team: David, Luis, Mike, Eric, Jimmy, plus all other developers who
contributed to this release from ISB.  Thanks to developers and users from
the TPP's user community who also provided feedback and code contributions.

-- 
You received this message be

Re: [spctools-discuss] Re: TPP 6.1.0 Release is now available

[Malcolm Cook]

Hi David,

Indeed, the svn link I took from these instructions 

 is 
incorrect (and probably should be amended), while the link you advise (and 
appearing above in the announcement) is correct.

BTW - I would offer to amend them myself but am unable to see if I am 
allowed to have an account on the wiki - seemingly not.

FWIW - I do now find that downloading and expanding the tarball is many 
times faster then using svn, so I will prefer it going forward.

Thanks,

~Malcolm

On Tuesday, June 7, 2022 at 5:53:04 PM UTC-5 David Shteynberg wrote:

> Hi Malcolm,
>
> Thanks for your interest in the TPP.
> I think your url has a mistake in it.  Please try the following command:
>
> svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6-1-0 
> 
>
> Cheers,
> -David
>
> On Tue, Jun 7, 2022 at 3:44 PM Malcolm Cook  wrote:
>
>> Hi,
>>
>> I am checking out again from the release_6.1.0 since my `make all` is 
>> problematic, I want to start over, and `make clean` seems perhaps 
>> incomplete in its cleaning.
>>
>> Alas I encounter this error whose workaround I can not guess:
>>
>> svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0
>> svn: E17: URL '
>> http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0' doesn't exist
>>
>>
>> On Tuesday, June 7, 2022 at 12:37:31 AM UTC-5 Luis wrote:
>>
>>> Hi Malcolm,
>>> Thank you for the congrats, and for catching that in our build notes; we 
>>> will correct it soon.  In the "Pulling from Sourceforge" section, just 
>>> follow the commented-out command instead of the last one:
>>>
>>> #svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0 
>>> <- this one; remove the leading pound sign
>>> svn checkout 
>>> http://svn.code.sf.net/p/sashimi/code/trunk/trans_proteomic_pipeline   
>>> < not this one
>>>
>>>
>>> As of tonight, though, the trunk code is still virtually identical to 
>>> what is tagged as release_6.1.0, so it should work fine.
>>>
>>> Let us know if you run into any other issues.
>>>
>>> Thank you for using TPP!
>>> --Luis
>>>
>>>
>>> On Mon, Jun 6, 2022 at 10:04 PM malcook  wrote:
>>>
 Congrats on the new release.

 You will probably want to modify these instructions  
 which
  
 still advise to download from trunk.  

 I just followed  them.

 Should I still expect this to work satisfactorily?

 Thanks

 On Friday, June 3, 2022 at 3:23:19 AM UTC-5 Luis wrote:

> Announcing the official release of Trans-Proteomic Pipeline (TPP) 
> 6.1.0 "Parhelion"
>
> We are proud to offer a major update to the Trans-Proteomic Pipeline 
> (TPP) software, release 6.1.0.  The software is available for Windows as 
> well as Linux from all the usual locations (please see the section below, 
> "Getting the TPP Software").  Most users are recommended to use the 
> Windows 
> installer, which installs and configures TPP and other required software, 
> such as a web server.  For advanced users who need to customize TPP, or 
> for 
> those who run on Linux or OS X, the source code can be downloaded.
>
>
> *Release Notes *
> Release notes on the most important new features, changes, and known 
> issues are available at:
>   
> http://tools.proteomecenter.org/wiki/index.php?title=TPP:6.1.0_Release_Notes
>
>
> *Getting the TPP Software*
> Download the TPP version 6.1.0 native windows installer from the 
> Sashimi SourceForge project file release page:
>  https://sourceforge.net/projects/sashimi/files/Trans-Proteomic 
> Pipeline (TPP)/TPP v6.1 (Parhelion) rev 0/
>
> Everyone is encouraged to read and contribute to our wiki, at
>   http://tools.proteomecenter.org/wiki/
>
> For guides to installing and using our software, please see our wiki:
>   http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP
>
> For downloading the source code, please go to the following link:
>   http://sourceforge.net/projects/sashimi/files/  and find the 6.1.0 
> source code .zip package
> or, check out the code directly from svn:
>   svn export svn://svn.code.sf.net/p/sashimi/code/tags/release_6-1-0
>
> For building from source, please refer to the README and INSTALL files 
> in src/ directory of TPP as well as the wiki.
>
>
> *Acknowledgements*
> The TPP Team: David, Luis, Mike, Eric, Jimmy, plus all other 
> developers who contributed to this release from ISB.  Thanks to 
> developers 
> and users from the TPP's user community who also provided feedback and 
> code 
> contributions.
>
>
> -- 
 You received this message becaus

Re: [spctools-discuss] Re: TPP 6.1.0 Release is now available

['David Shteynberg' via spctools-discuss]

Hi Malcolm,

Thanks for your interest in the TPP.
I think your url has a mistake in it.  Please try the following command:

svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6-1-0


Cheers,
-David

On Tue, Jun 7, 2022 at 3:44 PM Malcolm Cook  wrote:

> Hi,
>
> I am checking out again from the release_6.1.0 since my `make all` is
> problematic, I want to start over, and `make clean` seems perhaps
> incomplete in its cleaning.
>
> Alas I encounter this error whose workaround I can not guess:
>
> svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0
> svn: E17: URL '
> http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0' doesn't exist
>
>
> On Tuesday, June 7, 2022 at 12:37:31 AM UTC-5 Luis wrote:
>
>> Hi Malcolm,
>> Thank you for the congrats, and for catching that in our build notes; we
>> will correct it soon.  In the "Pulling from Sourceforge" section, just
>> follow the commented-out command instead of the last one:
>>
>> #svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0 
>> <- this one; remove the leading pound sign
>> svn checkout 
>> http://svn.code.sf.net/p/sashimi/code/trunk/trans_proteomic_pipeline   < 
>> not this one
>>
>>
>> As of tonight, though, the trunk code is still virtually identical to
>> what is tagged as release_6.1.0, so it should work fine.
>>
>> Let us know if you run into any other issues.
>>
>> Thank you for using TPP!
>> --Luis
>>
>>
>> On Mon, Jun 6, 2022 at 10:04 PM malcook  wrote:
>>
>>> Congrats on the new release.
>>>
>>> You will probably want to modify these instructions
>>> which
>>> still advise to download from trunk.
>>>
>>> I just followed  them.
>>>
>>> Should I still expect this to work satisfactorily?
>>>
>>> Thanks
>>>
>>> On Friday, June 3, 2022 at 3:23:19 AM UTC-5 Luis wrote:
>>>
 Announcing the official release of Trans-Proteomic Pipeline (TPP) 6.1.0
 "Parhelion"

 We are proud to offer a major update to the Trans-Proteomic Pipeline
 (TPP) software, release 6.1.0.  The software is available for Windows as
 well as Linux from all the usual locations (please see the section below,
 "Getting the TPP Software").  Most users are recommended to use the Windows
 installer, which installs and configures TPP and other required software,
 such as a web server.  For advanced users who need to customize TPP, or for
 those who run on Linux or OS X, the source code can be downloaded.


 *Release Notes *
 Release notes on the most important new features, changes, and known
 issues are available at:

 http://tools.proteomecenter.org/wiki/index.php?title=TPP:6.1.0_Release_Notes


 *Getting the TPP Software*
 Download the TPP version 6.1.0 native windows installer from the
 Sashimi SourceForge project file release page:
  https://sourceforge.net/projects/sashimi/files/Trans-Proteomic
 Pipeline (TPP)/TPP v6.1 (Parhelion) rev 0/

 Everyone is encouraged to read and contribute to our wiki, at
   http://tools.proteomecenter.org/wiki/

 For guides to installing and using our software, please see our wiki:
   http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP

 For downloading the source code, please go to the following link:
   http://sourceforge.net/projects/sashimi/files/  and find the 6.1.0
 source code .zip package
 or, check out the code directly from svn:
   svn export svn://svn.code.sf.net/p/sashimi/code/tags/release_6-1-0

 For building from source, please refer to the README and INSTALL files
 in src/ directory of TPP as well as the wiki.


 *Acknowledgements*
 The TPP Team: David, Luis, Mike, Eric, Jimmy, plus all other developers
 who contributed to this release from ISB.  Thanks to developers and users
 from the TPP's user community who also provided feedback and code
 contributions.


 --
>>> You received this message because you are subscribed to the Google
>>> Groups "spctools-discuss" group.
>>> To unsubscribe from this group and stop receiving emails from it, send
>>> an email to spctools-discu...@googlegroups.com.
>>> To view this discussion on the web visit
>>> https://groups.google.com/d/msgid/spctools-discuss/60dc756c-e679-4a3a-bd6b-74856abfe499n%40googlegroups.com
>>> 
>>> .
>>>
>> --
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> https://groups.google.com/d/ms

Re: [spctools-discuss] Re: TPP 6.1.0 Release is now available

[Malcolm Cook]

Hi,

I am checking out again from the release_6.1.0 since my `make all` is 
problematic, I want to start over, and `make clean` seems perhaps 
incomplete in its cleaning.

Alas I encounter this error whose workaround I can not guess:

svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0
svn: E17: URL 
'http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0' doesn't exist


On Tuesday, June 7, 2022 at 12:37:31 AM UTC-5 Luis wrote:

> Hi Malcolm,
> Thank you for the congrats, and for catching that in our build notes; we 
> will correct it soon.  In the "Pulling from Sourceforge" section, just 
> follow the commented-out command instead of the last one:
>
> #svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0 
> <- this one; remove the leading pound sign
> svn checkout 
> http://svn.code.sf.net/p/sashimi/code/trunk/trans_proteomic_pipeline   < 
> not this one
>
>
> As of tonight, though, the trunk code is still virtually identical to what 
> is tagged as release_6.1.0, so it should work fine.
>
> Let us know if you run into any other issues.
>
> Thank you for using TPP!
> --Luis
>
>
> On Mon, Jun 6, 2022 at 10:04 PM malcook  wrote:
>
>> Congrats on the new release.
>>
>> You will probably want to modify these instructions  
>> which
>>  
>> still advise to download from trunk.  
>>
>> I just followed  them.
>>
>> Should I still expect this to work satisfactorily?
>>
>> Thanks
>>
>> On Friday, June 3, 2022 at 3:23:19 AM UTC-5 Luis wrote:
>>
>>> Announcing the official release of Trans-Proteomic Pipeline (TPP) 6.1.0 
>>> "Parhelion"
>>>
>>> We are proud to offer a major update to the Trans-Proteomic Pipeline 
>>> (TPP) software, release 6.1.0.  The software is available for Windows as 
>>> well as Linux from all the usual locations (please see the section below, 
>>> "Getting the TPP Software").  Most users are recommended to use the Windows 
>>> installer, which installs and configures TPP and other required software, 
>>> such as a web server.  For advanced users who need to customize TPP, or for 
>>> those who run on Linux or OS X, the source code can be downloaded.
>>>
>>>
>>> *Release Notes *
>>> Release notes on the most important new features, changes, and known 
>>> issues are available at:
>>>   
>>> http://tools.proteomecenter.org/wiki/index.php?title=TPP:6.1.0_Release_Notes
>>>
>>>
>>> *Getting the TPP Software*
>>> Download the TPP version 6.1.0 native windows installer from the Sashimi 
>>> SourceForge project file release page:
>>>  https://sourceforge.net/projects/sashimi/files/Trans-Proteomic 
>>> Pipeline (TPP)/TPP v6.1 (Parhelion) rev 0/
>>>
>>> Everyone is encouraged to read and contribute to our wiki, at
>>>   http://tools.proteomecenter.org/wiki/
>>>
>>> For guides to installing and using our software, please see our wiki:
>>>   http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP
>>>
>>> For downloading the source code, please go to the following link:
>>>   http://sourceforge.net/projects/sashimi/files/  and find the 6.1.0 
>>> source code .zip package
>>> or, check out the code directly from svn:
>>>   svn export svn://svn.code.sf.net/p/sashimi/code/tags/release_6-1-0
>>>
>>> For building from source, please refer to the README and INSTALL files 
>>> in src/ directory of TPP as well as the wiki.
>>>
>>>
>>> *Acknowledgements*
>>> The TPP Team: David, Luis, Mike, Eric, Jimmy, plus all other developers 
>>> who contributed to this release from ISB.  Thanks to developers and users 
>>> from the TPP's user community who also provided feedback and code 
>>> contributions.
>>>
>>>
>>> -- 
>> You received this message because you are subscribed to the Google Groups 
>> "spctools-discuss" group.
>> To unsubscribe from this group and stop receiving emails from it, send an 
>> email to spctools-discu...@googlegroups.com.
>> To view this discussion on the web visit 
>> https://groups.google.com/d/msgid/spctools-discuss/60dc756c-e679-4a3a-bd6b-74856abfe499n%40googlegroups.com
>>  
>> 
>> .
>>
>

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Re: [spctools-discuss] Re: TPP 6.1.0 Release is now available

['Luis Mendoza' via spctools-discuss]

Hi Malcolm,
Thank you for the congrats, and for catching that in our build notes; we
will correct it soon.  In the "Pulling from Sourceforge" section, just
follow the commented-out command instead of the last one:

#svn checkout http://svn.code.sf.net/p/sashimi/code/tags/release_6.1.0
<- this one; remove the leading pound sign
svn checkout 
http://svn.code.sf.net/p/sashimi/code/trunk/trans_proteomic_pipeline
  < not this one


As of tonight, though, the trunk code is still virtually identical to what
is tagged as release_6.1.0, so it should work fine.

Let us know if you run into any other issues.

Thank you for using TPP!
--Luis


On Mon, Jun 6, 2022 at 10:04 PM malcook  wrote:

> Congrats on the new release.
>
> You will probably want to modify these instructions
> which
> still advise to download from trunk.
>
> I just followed  them.
>
> Should I still expect this to work satisfactorily?
>
> Thanks
>
> On Friday, June 3, 2022 at 3:23:19 AM UTC-5 Luis wrote:
>
>> Announcing the official release of Trans-Proteomic Pipeline (TPP) 6.1.0
>> "Parhelion"
>>
>> We are proud to offer a major update to the Trans-Proteomic Pipeline
>> (TPP) software, release 6.1.0.  The software is available for Windows as
>> well as Linux from all the usual locations (please see the section below,
>> "Getting the TPP Software").  Most users are recommended to use the Windows
>> installer, which installs and configures TPP and other required software,
>> such as a web server.  For advanced users who need to customize TPP, or for
>> those who run on Linux or OS X, the source code can be downloaded.
>>
>>
>> *Release Notes *
>> Release notes on the most important new features, changes, and known
>> issues are available at:
>>
>> http://tools.proteomecenter.org/wiki/index.php?title=TPP:6.1.0_Release_Notes
>>
>>
>> *Getting the TPP Software*
>> Download the TPP version 6.1.0 native windows installer from the Sashimi
>> SourceForge project file release page:
>>  https://sourceforge.net/projects/sashimi/files/Trans-Proteomic Pipeline
>> (TPP)/TPP v6.1 (Parhelion) rev 0/
>>
>> Everyone is encouraged to read and contribute to our wiki, at
>>   http://tools.proteomecenter.org/wiki/
>>
>> For guides to installing and using our software, please see our wiki:
>>   http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP
>>
>> For downloading the source code, please go to the following link:
>>   http://sourceforge.net/projects/sashimi/files/  and find the 6.1.0
>> source code .zip package
>> or, check out the code directly from svn:
>>   svn export svn://svn.code.sf.net/p/sashimi/code/tags/release_6-1-0
>>
>> For building from source, please refer to the README and INSTALL files in
>> src/ directory of TPP as well as the wiki.
>>
>>
>> *Acknowledgements*
>> The TPP Team: David, Luis, Mike, Eric, Jimmy, plus all other developers
>> who contributed to this release from ISB.  Thanks to developers and users
>> from the TPP's user community who also provided feedback and code
>> contributions.
>>
>>
>> --
> You received this message because you are subscribed to the Google Groups
> "spctools-discuss" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to spctools-discuss+unsubscr...@googlegroups.com.
> To view this discussion on the web visit
> https://groups.google.com/d/msgid/spctools-discuss/60dc756c-e679-4a3a-bd6b-74856abfe499n%40googlegroups.com
> 
> .
>

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[spctools-discuss] Re: TPP 6.1.0 Release is now available

[malcook]

Congrats on the new release.

You will probably want to modify these instructions  
which
 
still advise to download from trunk.  

I just followed  them.

Should I still expect this to work satisfactorily?

Thanks

On Friday, June 3, 2022 at 3:23:19 AM UTC-5 Luis wrote:

> Announcing the official release of Trans-Proteomic Pipeline (TPP) 6.1.0 
> "Parhelion"
>
> We are proud to offer a major update to the Trans-Proteomic Pipeline (TPP) 
> software, release 6.1.0.  The software is available for Windows as well as 
> Linux from all the usual locations (please see the section below, "Getting 
> the TPP Software").  Most users are recommended to use the Windows 
> installer, which installs and configures TPP and other required software, 
> such as a web server.  For advanced users who need to customize TPP, or for 
> those who run on Linux or OS X, the source code can be downloaded.
>
>
> *Release Notes *
> Release notes on the most important new features, changes, and known 
> issues are available at:
>   
> http://tools.proteomecenter.org/wiki/index.php?title=TPP:6.1.0_Release_Notes
>
>
> *Getting the TPP Software*
> Download the TPP version 6.1.0 native windows installer from the Sashimi 
> SourceForge project file release page:
>  https://sourceforge.net/projects/sashimi/files/Trans-Proteomic Pipeline 
> (TPP)/TPP v6.1 (Parhelion) rev 0/
>
> Everyone is encouraged to read and contribute to our wiki, at
>   http://tools.proteomecenter.org/wiki/
>
> For guides to installing and using our software, please see our wiki:
>   http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP
>
> For downloading the source code, please go to the following link:
>   http://sourceforge.net/projects/sashimi/files/  and find the 6.1.0 
> source code .zip package
> or, check out the code directly from svn:
>   svn export svn://svn.code.sf.net/p/sashimi/code/tags/release_6-1-0
>
> For building from source, please refer to the README and INSTALL files in 
> src/ directory of TPP as well as the wiki.
>
>
> *Acknowledgements*
> The TPP Team: David, Luis, Mike, Eric, Jimmy, plus all other developers 
> who contributed to this release from ISB.  Thanks to developers and users 
> from the TPP's user community who also provided feedback and code 
> contributions.
>
>
>

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