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Revision 1.42 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Jul 28 21:46:19 2010 UTC (9 years, 4 months ago) by olson
Branch: MAIN
CVS Tags: mgrast_dev_02212011, mgrast_dev_02222011, mgrast_dev_03252011, mgrast_dev_03312011, mgrast_dev_04012011, mgrast_dev_04052011, mgrast_dev_04082011, mgrast_dev_04132011, mgrast_dev_05262011, mgrast_dev_06072011, mgrast_dev_08022011, mgrast_dev_08112011, mgrast_dev_10262011, mgrast_dev_12152011, mgrast_release_3_0, mgrast_release_3_0_1, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_4, mgrast_release_3_1_0, mgrast_release_3_1_1, mgrast_release_3_1_2, mgrast_version_3_2, myrast_33, rast_rel_2010_0827, rast_rel_2010_0928, rast_rel_2010_1206, rast_rel_2011_0119, rast_rel_2011_0928
Changes since 1.41: +2 -0 lines
Diff to previous 1.41
Push the GENOME/TAXONOMY/PROJECT files down into the raw genome directory so the
ones the user picked are the ones that are used.

Revision 1.41 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Apr 28 21:58:51 2010 UTC (9 years, 7 months ago) by olson
Branch: MAIN
CVS Tags: rast_rel_2010_0526
Changes since 1.40: +259 -208 lines
Diff to previous 1.40
New RAST genome upload support.

Revision 1.40 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Apr 7 15:31:32 2010 UTC (9 years, 8 months ago) by paczian
Branch: MAIN
Changes since 1.39: +10 -2 lines
Diff to previous 1.39
added support for reserved jobs

Revision 1.39 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Dec 22 21:55:03 2009 UTC (9 years, 11 months ago) by olson
Branch: MAIN
CVS Tags: rast_rel_2010_0118
Changes since 1.38: +38 -5 lines
Diff to previous 1.38
add non_active flag to job creation; start of upload-tarfile code.

Revision 1.38 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Oct 28 15:44:46 2009 UTC (10 years, 1 month ago) by olson
Branch: MAIN
Changes since 1.37: +9 -5 lines
Diff to previous 1.37
minor tweaks

Revision 1.37 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Mar 26 18:55:18 2009 UTC (10 years, 8 months ago) by olson
Branch: MAIN
CVS Tags: rast_rel_2009_03_26, rast_rel_2009_05_18, rast_rel_2009_07_09, rast_rel_2009_0925
Changes since 1.36: +5 -5 lines
Diff to previous 1.36
I will get this right eventually.

Revision 1.36 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Mar 26 18:54:00 2009 UTC (10 years, 8 months ago) by olson
Branch: MAIN
Changes since 1.35: +4 -4 lines
Diff to previous 1.35
typo

Revision 1.35 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Mar 26 18:52:29 2009 UTC (10 years, 8 months ago) by olson
Branch: MAIN
Changes since 1.34: +5 -0 lines
Diff to previous 1.34
fix find_job_fileserver: if df returns /dev, the fileserver is the local hostname.

Revision 1.34 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Mar 25 21:49:03 2009 UTC (10 years, 8 months ago) by olson
Branch: MAIN
Changes since 1.33: +50 -0 lines
Diff to previous 1.33
Rollup of some bob-rast changes.

Revision 1.33 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Jan 23 18:20:12 2009 UTC (10 years, 10 months ago) by dsouza
Branch: MAIN
CVS Tags: rast_rel_2009_02_05
Changes since 1.32: +11 -41 lines
Diff to previous 1.32
Deleted old unused code from getUserObject which was breaking stuff.

Revision 1.32 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 14 16:08:46 2008 UTC (11 years, 4 months ago) by olson
Branch: MAIN
CVS Tags: mgrast_rel_2008_0625, mgrast_rel_2008_0806, mgrast_rel_2008_0917, mgrast_rel_2008_0919, mgrast_rel_2008_0923, mgrast_rel_2008_0924, mgrast_rel_2008_1110, mgrast_rel_2008_1110_v2, rast_2008_0924, rast_rel_2008_07_21, rast_rel_2008_08_07, rast_rel_2008_09_29, rast_rel_2008_09_30, rast_rel_2008_10_09, rast_rel_2008_10_29, rast_rel_2008_11_24, rast_rel_2008_12_18, rast_release_2008_09_29
Changes since 1.31: +14 -2 lines
Diff to previous 1.31
Fix bug in check_jobs
Job48 checks $FIG_Config::meta_use_db before createing GenomeMetaDB-based metafiles.
MGRAST configs set to use that flag.

Revision 1.31 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Jun 20 20:09:05 2008 UTC (11 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.30: +9 -2 lines
Diff to previous 1.30
Rollup of MGRAST changes.

Revision 1.30 - (view) (download) (as text) (annotate) - [select for diffs]
Tue May 27 23:42:10 2008 UTC (11 years, 6 months ago) by redwards
Branch: MAIN
CVS Tags: rast_rel_2008_06_16, rast_rel_2008_06_18
Changes since 1.29: +2 -2 lines
Diff to previous 1.29
correcting the order that the web app is called to stop an annoying error message

Revision 1.29 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Feb 14 18:15:14 2008 UTC (11 years, 9 months ago) by olson
Branch: MAIN
CVS Tags: rast_rel_2008_04_23
Changes since 1.28: +42 -17 lines
Diff to previous 1.28
account for spurious changes in PPO API.

Revision 1.28 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Feb 11 21:52:45 2008 UTC (11 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.27: +1 -1 lines
Diff to previous 1.27
bugfix.

Revision 1.27 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Feb 11 21:45:26 2008 UTC (11 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.26: +64 -5 lines
Diff to previous 1.26
Add support for deadline scheduling & job export.

Revision 1.26 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Oct 12 20:52:36 2007 UTC (12 years, 2 months ago) by olson
Branch: MAIN
Changes since 1.25: +2 -1 lines
Diff to previous 1.25
do \r\n stuff on first line of uploaded fasta.

Revision 1.25 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Oct 12 13:08:25 2007 UTC (12 years, 2 months ago) by gdpusch
Branch: MAIN
Changes since 1.24: +2 -2 lines
Diff to previous 1.24
Also fixed CRLF,LF line terminators. (Egad, what system uses _them_ ?!?) -- /gdp

Revision 1.24 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Oct 9 19:31:30 2007 UTC (12 years, 2 months ago) by paarmann
Branch: MAIN
Changes since 1.23: +4 -0 lines
Diff to previous 1.23
added method to read out PROJECT

Revision 1.23 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Oct 8 16:40:37 2007 UTC (12 years, 2 months ago) by paarmann
Branch: MAIN
Changes since 1.22: +38 -0 lines
Diff to previous 1.22
added get_status_of_job for Terry

Revision 1.22 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Oct 8 15:27:49 2007 UTC (12 years, 2 months ago) by wilke
Branch: MAIN
Changes since 1.21: +17 -7 lines
Diff to previous 1.21
changed contig method, contig ids are read from the contigs file now

Revision 1.21 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Oct 1 15:53:50 2007 UTC (12 years, 2 months ago) by wilke
Branch: MAIN
Changes since 1.20: +3 -0 lines
Diff to previous 1.20
removed newline char after find GENOME

Revision 1.20 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Sep 28 20:40:42 2007 UTC (12 years, 2 months ago) by wilke
Branch: MAIN
Changes since 1.19: +7 -1 lines
Diff to previous 1.19
changed `mv $tmp $file` to rename($tmp , $file) and check error status

Revision 1.19 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Sep 28 19:46:23 2007 UTC (12 years, 2 months ago) by wilke
Branch: MAIN
Changes since 1.18: +47 -0 lines
Diff to previous 1.18
Added set_genome_name and _change_pattern_in_file

Revision 1.18 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Sep 26 23:16:57 2007 UTC (12 years, 2 months ago) by gdpusch
Branch: MAIN
Changes since 1.17: +5 -0 lines
Diff to previous 1.17
Fixed the CR/CRLF newline problem, and `parse_genbank` clobbering the GENOME, PROJECT, and TAXONOMY files. -- /gdp

Revision 1.17 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Sep 25 01:14:57 2007 UTC (12 years, 2 months ago) by olson
Branch: MAIN
Changes since 1.16: +1 -0 lines
Diff to previous 1.16
rollup of chagnes

Revision 1.16 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Sep 11 16:44:41 2007 UTC (12 years, 3 months ago) by paarmann
Branch: MAIN
Changes since 1.15: +6 -5 lines
Diff to previous 1.15
fix in metagenome upload

Revision 1.15 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Sep 5 20:59:03 2007 UTC (12 years, 3 months ago) by olson
Branch: MAIN
Changes since 1.14: +12 -1 lines
Diff to previous 1.14
Rollup of RAST->SEED import stuff.

Revision 1.14 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 23 19:51:59 2007 UTC (12 years, 4 months ago) by paarmann
Branch: MAIN
Changes since 1.13: +1 -1 lines
Diff to previous 1.13
*** empty log message ***

Revision 1.13 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 23 19:50:07 2007 UTC (12 years, 4 months ago) by paarmann
Branch: MAIN
Changes since 1.12: +2 -1 lines
Diff to previous 1.12
*** empty log message ***

Revision 1.12 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Jul 23 19:24:43 2007 UTC (12 years, 4 months ago) by paarmann
Branch: MAIN
Changes since 1.11: +14 -1 lines
Diff to previous 1.11
*** empty log message ***

Revision 1.11 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jul 10 19:32:22 2007 UTC (12 years, 5 months ago) by olson
Branch: MAIN
Changes since 1.10: +15 -1 lines
Diff to previous 1.10
Some minor mg assignment fixes

Revision 1.10 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Jun 7 14:31:24 2007 UTC (12 years, 6 months ago) by paczian
Branch: MAIN
Changes since 1.9: +2 -0 lines
Diff to previous 1.9
added meta info and returned error message when invalid file format during upload error occurs.

Revision 1.9 - (view) (download) (as text) (annotate) - [select for diffs]
Fri May 11 21:57:55 2007 UTC (12 years, 7 months ago) by olson
Branch: MAIN
Changes since 1.8: +1 -1 lines
Diff to previous 1.8
change email references from 48-hour to RAST

Revision 1.8 - (view) (download) (as text) (annotate) - [select for diffs]
Fri May 11 19:15:39 2007 UTC (12 years, 7 months ago) by paarmann
Branch: MAIN
Changes since 1.7: +35 -5 lines
Diff to previous 1.7
*** empty log message ***

Revision 1.7 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Apr 12 19:21:15 2007 UTC (12 years, 8 months ago) by paarmann
Branch: MAIN
Changes since 1.6: +1 -1 lines
Diff to previous 1.6
*** empty log message ***

Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Mar 13 16:38:06 2007 UTC (12 years, 9 months ago) by paarmann
Branch: MAIN
Changes since 1.5: +142 -2 lines
Diff to previous 1.5
*** empty log message ***

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Feb 27 21:00:27 2007 UTC (12 years, 9 months ago) by olson
Branch: MAIN
Changes since 1.4: +52 -0 lines
Diff to previous 1.4
move email support to Job48
remove stopligth status
make quality_check set up correction.status and correction.request if corrections needed

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Feb 2 22:17:20 2007 UTC (12 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.3: +2 -1 lines
Diff to previous 1.3
add/fix email and automatic continuation support

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Feb 2 16:42:52 2007 UTC (12 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.2: +4 -3 lines
Diff to previous 1.2
use FIG_Config for jobs direcotry(backend)

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Feb 1 20:03:54 2007 UTC (12 years, 10 months ago) by olson
Branch: MAIN
Changes since 1.1: +19 -0 lines
Diff to previous 1.1
rollup of 48hr fixes

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Tue Jan 16 21:37:23 2007 UTC (12 years, 10 months ago) by olson
Branch: MAIN
Add module to wrap up 48hr job lookups
Add script to find genomes in 48hr that aren't in seed.
Make BBHs colored purple on cluster cartoon

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