Commits · f2ff0d905b05cf531abe817e2de63fc663c93f2b · PAPPSO / i2MassChroQ

May 13, 2013

subversion repository imported into git with wommand : · f2ff0d90

Olivier Langella authored 11 years ago

git svn clone https://langella@subversion.renater.fr/xtandempipeline -T trunk -b branches -t tags

all files in subdirectory xtandempipeline moved to the git root.
subdirectory xtandempipeline removed

f2ff0d90

May 08, 2013

printing CSV results is now done via ODS doc · 623924d5

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@374 b8ef2a07-7df7-436f-90b9-41648038564b

623924d5

better ods2csv API · 6bdc3ee2

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@373 b8ef2a07-7df7-436f-90b9-41648038564b

6bdc3ee2

May 07, 2013

ods piped output · 6be66be7

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@372 b8ef2a07-7df7-436f-90b9-41648038564b

6be66be7

AlgoGrouping methods merged into one base object · 3e6382aa

langella authored 11 years ago

hashPeptide can print a human id

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@371 b8ef2a07-7df7-436f-90b9-41648038564b

3e6382aa

unique peptide output with position on proteins · c97f1256

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@370 b8ef2a07-7df7-436f-90b9-41648038564b

c97f1256

accept tandem-mass package as a replacement for xtandem-cyclone · 9d2f25c7
langella authored 11 years ago
```
git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@369 b8ef2a07-7df7-436f-90b9-41648038564b
```
9d2f25c7

Apr 30, 2013

new checkbox to export redundant peptide list · cbe66a3b

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@368 b8ef2a07-7df7-436f-90b9-41648038564b

cbe66a3b

possibility to configure a beta version for xtamdempipeline launched by jnlp · 00dc12a8
langella authored 11 years ago
```
git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@367 b8ef2a07-7df7-436f-90b9-41648038564b
```
00dc12a8

2 new jars added · a7e215c6

langella authored 11 years ago

new output package to produce xtp output
new peptide redundant output
BEWARE : work in progress

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@366 b8ef2a07-7df7-436f-90b9-41648038564b

a7e215c6

ignore build_ubuntu.xml ant file · 1bbebaae

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@365 b8ef2a07-7df7-436f-90b9-41648038564b

1bbebaae

Apr 23, 2013

Modify mimetype icon · 77be06cf

valot authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@364 b8ef2a07-7df7-436f-90b9-41648038564b

77be06cf

Apr 22, 2013

get_samples replaced by getMsRunSet · f0b558f8

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@363 b8ef2a07-7df7-436f-90b9-41648038564b

f0b558f8

· fc04f677

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@362 b8ef2a07-7df7-436f-90b9-41648038564b

fc04f677

Apr 19, 2013

no need of sharedmimeinfo file in debian directory · ca813719

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@361 b8ef2a07-7df7-436f-90b9-41648038564b

ca813719

new xpip document icon · 4e79708a

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@360 b8ef2a07-7df7-436f-90b9-41648038564b

4e79708a

trying the debian way to add mime info · fb722bda

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@359 b8ef2a07-7df7-436f-90b9-41648038564b

fb722bda

specify mime type of xpip documents and associated icon · 76060868

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@358 b8ef2a07-7df7-436f-90b9-41648038564b

76060868

desktop mimetype https://developer.gnome.org/shared-mime-info-spec/ · a560c318
langella authored 11 years ago
```
git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@357 b8ef2a07-7df7-436f-90b9-41648038564b
```
a560c318

XPIP file kick start · 6ae2cba7

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@356 b8ef2a07-7df7-436f-90b9-41648038564b

6ae2cba7

start and stop removed from output : non redundancy output is not compatible... · 3f0351f0

langella authored 11 years ago

start and stop removed from output : non redundancy output is not compatible with complete peptide list of each protein

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@355 b8ef2a07-7df7-436f-90b9-41648038564b

3f0351f0

mapdb removed · 12ed4bb2

langella authored 11 years ago

PeptideId removed : back to simple Peptide object

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@354 b8ef2a07-7df7-436f-90b9-41648038564b

12ed4bb2

version 3.3.1 Myosine Famélique proposed · a470cfb7

langella authored 11 years ago

 * proticdbml headers fixed
 * start and stop positions added in exported spreadsheet files

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@353 b8ef2a07-7df7-436f-90b9-41648038564b

a470cfb7

choose X!Tandem or Mascot files · e62401da

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@352 b8ef2a07-7df7-436f-90b9-41648038564b

e62401da

print start and stop positions into spreadsheet export files · 48ffb2b4
langella authored 11 years ago
```
git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@351 b8ef2a07-7df7-436f-90b9-41648038564b
```
48ffb2b4

Apr 15, 2013

typo error fixed · 3fb52a01

langella authored 11 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@350 b8ef2a07-7df7-436f-90b9-41648038564b

3fb52a01

Feb 20, 2013

display dataSource filename instead of the sample name · e3c11d5c

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@349 b8ef2a07-7df7-436f-90b9-41648038564b

e3c11d5c

add datasource file to MsRun on getInstance · ecd14770

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@348 b8ef2a07-7df7-436f-90b9-41648038564b

ecd14770

definition of an MsRun · 89da06aa

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@347 b8ef2a07-7df7-436f-90b9-41648038564b

89da06aa

· 30a09084

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@346 b8ef2a07-7df7-436f-90b9-41648038564b

30a09084

declare deprecated function · 364871c8

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@345 b8ef2a07-7df7-436f-90b9-41648038564b

364871c8

remove never used function · 7b38fc7a

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@344 b8ef2a07-7df7-436f-90b9-41648038564b

7b38fc7a

Feb 14, 2013

scan num was not stored in MapDb, pb fixed · e83eff84

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@343 b8ef2a07-7df7-436f-90b9-41648038564b

e83eff84

Feb 13, 2013

reverse to original parser · 12344299

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@342 b8ef2a07-7df7-436f-90b9-41648038564b

12344299

serializable interface added · c6c248a9

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@341 b8ef2a07-7df7-436f-90b9-41648038564b

c6c248a9

give line number on sax parse error · ef980daa

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@340 b8ef2a07-7df7-436f-90b9-41648038564b

ef980daa

Feb 12, 2013
- PeptideStoreClassic produces "natural" peptides, without MapDb · dd1b4098
  langella authored 12 years ago
  
  git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@339 b8ef2a07-7df7-436f-90b9-41648038564b
  dd1b4098
Feb 11, 2013

AlgoGrouping created · 006b3d7c

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@338 b8ef2a07-7df7-436f-90b9-41648038564b

006b3d7c

Feb 10, 2013

· 9847b717

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@337 b8ef2a07-7df7-436f-90b9-41648038564b

9847b717

force instanciation of MsRun throught MsRunSet · 2a60631f

langella authored 12 years ago

git-svn-id: https://subversion.renater.fr/xtandempipeline/trunk@336 b8ef2a07-7df7-436f-90b9-41648038564b

2a60631f

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