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git.donarmstrong.com Git - biopieces.git/log
martinahansen [Fri, 5 Jun 2009 08:03:41 +0000 (08:03 +0000)]
migrated removers
git-svn-id: http://biopieces.googlecode.com/svn/trunk@480
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martinahansen [Fri, 5 Jun 2009 07:30:14 +0000 (07:30 +0000)]
migrated upload_to_ucsc
git-svn-id: http://biopieces.googlecode.com/svn/trunk@477
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martinahansen [Thu, 4 Jun 2009 19:14:37 +0000 (19:14 +0000)]
almost there
git-svn-id: http://biopieces.googlecode.com/svn/trunk@475
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martinahansen [Thu, 4 Jun 2009 15:34:51 +0000 (15:34 +0000)]
fixed a couple of bugs - good
git-svn-id: http://biopieces.googlecode.com/svn/trunk@474
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martinahansen [Thu, 4 Jun 2009 13:43:56 +0000 (13:43 +0000)]
fixed bug in sort_records
git-svn-id: http://biopieces.googlecode.com/svn/trunk@473
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martinahansen [Tue, 2 Jun 2009 18:37:28 +0000 (18:37 +0000)]
bleh blah
git-svn-id: http://biopieces.googlecode.com/svn/trunk@472
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martinahansen [Tue, 2 Jun 2009 18:09:33 +0000 (18:09 +0000)]
deleting read_phastcons
git-svn-id: http://biopieces.googlecode.com/svn/trunk@470
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martinahansen [Tue, 2 Jun 2009 16:48:32 +0000 (16:48 +0000)]
remove bin dir
git-svn-id: http://biopieces.googlecode.com/svn/trunk@468
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martinahansen [Tue, 2 Jun 2009 15:14:14 +0000 (15:14 +0000)]
3 more again
git-svn-id: http://biopieces.googlecode.com/svn/trunk@467
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martinahansen [Tue, 2 Jun 2009 14:42:44 +0000 (14:42 +0000)]
3 more
git-svn-id: http://biopieces.googlecode.com/svn/trunk@464
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martinahansen [Tue, 2 Jun 2009 12:34:05 +0000 (12:34 +0000)]
more read_ tools migrated
git-svn-id: http://biopieces.googlecode.com/svn/trunk@462
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martinahansen [Tue, 2 Jun 2009 12:17:53 +0000 (12:17 +0000)]
migrating read_ tools
git-svn-id: http://biopieces.googlecode.com/svn/trunk@460
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martinahansen [Tue, 2 Jun 2009 11:12:26 +0000 (11:12 +0000)]
migration of all write tools done
git-svn-id: http://biopieces.googlecode.com/svn/trunk@458
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martinahansen [Tue, 2 Jun 2009 10:57:14 +0000 (10:57 +0000)]
migrated 3 write tools
git-svn-id: http://biopieces.googlecode.com/svn/trunk@457
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martinahansen [Fri, 29 May 2009 12:13:05 +0000 (12:13 +0000)]
migrated final plotters
git-svn-id: http://biopieces.googlecode.com/svn/trunk@455
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martinahansen [Fri, 29 May 2009 10:04:43 +0000 (10:04 +0000)]
migrated plot_lendist
git-svn-id: http://biopieces.googlecode.com/svn/trunk@453
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martinahansen [Fri, 29 May 2009 09:56:36 +0000 (09:56 +0000)]
migrated plot_karyogram
git-svn-id: http://biopieces.googlecode.com/svn/trunk@450
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martinahansen [Fri, 29 May 2009 09:40:25 +0000 (09:40 +0000)]
migrated plot_histogram
git-svn-id: http://biopieces.googlecode.com/svn/trunk@449
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martinahansen [Fri, 29 May 2009 09:23:06 +0000 (09:23 +0000)]
migrated plot_chrdist
git-svn-id: http://biopieces.googlecode.com/svn/trunk@447
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martinahansen [Thu, 28 May 2009 11:46:06 +0000 (11:46 +0000)]
migrated remove_adaptor
git-svn-id: http://biopieces.googlecode.com/svn/trunk@445
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martinahansen [Thu, 28 May 2009 10:34:23 +0000 (10:34 +0000)]
migrated 4 more
git-svn-id: http://biopieces.googlecode.com/svn/trunk@442
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martinahansen [Thu, 28 May 2009 10:14:12 +0000 (10:14 +0000)]
migrated tile_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@441
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martinahansen [Thu, 28 May 2009 10:01:12 +0000 (10:01 +0000)]
migrated sort_records
git-svn-id: http://biopieces.googlecode.com/svn/trunk@438
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martinahansen [Thu, 28 May 2009 09:51:57 +0000 (09:51 +0000)]
migrated sum_vals
git-svn-id: http://biopieces.googlecode.com/svn/trunk@436
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martinahansen [Thu, 28 May 2009 09:43:48 +0000 (09:43 +0000)]
migrated patscan_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@435
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martinahansen [Thu, 28 May 2009 09:43:16 +0000 (09:43 +0000)]
migrated patscan_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@434
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martinahansen [Wed, 27 May 2009 05:50:25 +0000 (05:50 +0000)]
migrated oligo_freq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@432
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martinahansen [Wed, 27 May 2009 05:34:40 +0000 (05:34 +0000)]
migrated trans family
git-svn-id: http://biopieces.googlecode.com/svn/trunk@430
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martinahansen [Wed, 27 May 2009 05:02:25 +0000 (05:02 +0000)]
migrated merge_records
git-svn-id: http://biopieces.googlecode.com/svn/trunk@427
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martinahansen [Wed, 27 May 2009 04:36:19 +0000 (04:36 +0000)]
migrated max, min, mean, and median _vals
git-svn-id: http://biopieces.googlecode.com/svn/trunk@426
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martinahansen [Wed, 27 May 2009 04:06:42 +0000 (04:06 +0000)]
migrated match_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@423
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martinahansen [Wed, 27 May 2009 03:52:20 +0000 (03:52 +0000)]
added 3 more
git-svn-id: http://biopieces.googlecode.com/svn/trunk@421
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martinahansen [Tue, 26 May 2009 17:41:50 +0000 (17:41 +0000)]
migrated 3 biopieces
git-svn-id: http://biopieces.googlecode.com/svn/trunk@419
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martinahansen [Tue, 26 May 2009 12:12:21 +0000 (12:12 +0000)]
migrated create_vmatch_index
git-svn-id: http://biopieces.googlecode.com/svn/trunk@417
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martinahansen [Tue, 26 May 2009 11:26:04 +0000 (11:26 +0000)]
migrated create_weight_matrix
git-svn-id: http://biopieces.googlecode.com/svn/trunk@416
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martinahansen [Tue, 26 May 2009 11:18:29 +0000 (11:18 +0000)]
migrated count_vals
git-svn-id: http://biopieces.googlecode.com/svn/trunk@413
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martinahansen [Tue, 26 May 2009 10:57:23 +0000 (10:57 +0000)]
migrated count_records
git-svn-id: http://biopieces.googlecode.com/svn/trunk@412
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martinahansen [Tue, 26 May 2009 09:14:05 +0000 (09:14 +0000)]
migrated and fixed calc_fixedstep
git-svn-id: http://biopieces.googlecode.com/svn/trunk@410
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martinahansen [Mon, 25 May 2009 12:22:22 +0000 (12:22 +0000)]
migrated calc_bit_scores
git-svn-id: http://biopieces.googlecode.com/svn/trunk@408
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martinahansen [Mon, 25 May 2009 07:40:26 +0000 (07:40 +0000)]
migrated blat_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@406
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martinahansen [Sun, 24 May 2009 20:45:58 +0000 (20:45 +0000)]
migrated assemble_tag_contigs
git-svn-id: http://biopieces.googlecode.com/svn/trunk@403
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martinahansen [Sun, 24 May 2009 19:49:12 +0000 (19:49 +0000)]
migrated split biopieces
git-svn-id: http://biopieces.googlecode.com/svn/trunk@401
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martinahansen [Sun, 24 May 2009 19:49:00 +0000 (19:49 +0000)]
migrated split biopieces
git-svn-id: http://biopieces.googlecode.com/svn/trunk@400
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martinahansen [Sun, 24 May 2009 19:23:10 +0000 (19:23 +0000)]
migrated random_records
git-svn-id: http://biopieces.googlecode.com/svn/trunk@398
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martinahansen [Sun, 24 May 2009 15:48:16 +0000 (15:48 +0000)]
magrated analyze biopieces
git-svn-id: http://biopieces.googlecode.com/svn/trunk@396
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martinahansen [Sun, 24 May 2009 15:48:07 +0000 (15:48 +0000)]
magrated analyze biopieces
git-svn-id: http://biopieces.googlecode.com/svn/trunk@395
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martinahansen [Sun, 24 May 2009 10:35:56 +0000 (10:35 +0000)]
migrated write_align
git-svn-id: http://biopieces.googlecode.com/svn/trunk@394
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martinahansen [Sun, 24 May 2009 10:08:01 +0000 (10:08 +0000)]
migrated align_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@391
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martinahansen [Sun, 24 May 2009 09:56:12 +0000 (09:56 +0000)]
migrated add_ident
git-svn-id: http://biopieces.googlecode.com/svn/trunk@390
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martinahansen [Sun, 24 May 2009 09:21:16 +0000 (09:21 +0000)]
migrated shuffle_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@387
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martinahansen [Sun, 24 May 2009 09:10:21 +0000 (09:10 +0000)]
migrated complement_seq and reverse_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@385
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martinahansen [Sat, 23 May 2009 20:51:25 +0000 (20:51 +0000)]
migrated extract_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@383
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martinahansen [Sat, 23 May 2009 19:51:55 +0000 (19:51 +0000)]
rewrite begin
git-svn-id: http://biopieces.googlecode.com/svn/trunk@381
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martinahansen [Thu, 14 May 2009 11:38:43 +0000 (11:38 +0000)]
polishing split_vals
git-svn-id: http://biopieces.googlecode.com/svn/trunk@380
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martinahansen [Wed, 13 May 2009 15:33:17 +0000 (15:33 +0000)]
added lowercase_seq symlink
git-svn-id: http://biopieces.googlecode.com/svn/trunk@378
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martinahansen [Wed, 13 May 2009 15:32:09 +0000 (15:32 +0000)]
fixing lowercase_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@377
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martinahansen [Wed, 13 May 2009 15:28:16 +0000 (15:28 +0000)]
fixed symlink trouble
git-svn-id: http://biopieces.googlecode.com/svn/trunk@376
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martinahansen [Wed, 13 May 2009 15:20:09 +0000 (15:20 +0000)]
git-svn-id: http://biopieces.googlecode.com/svn/trunk@375
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martinahansen [Wed, 13 May 2009 15:17:00 +0000 (15:17 +0000)]
git-svn-id: http://biopieces.googlecode.com/svn/trunk@374
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martinahansen [Wed, 13 May 2009 07:39:58 +0000 (07:39 +0000)]
moved all binaries and created symlinks instead
git-svn-id: http://biopieces.googlecode.com/svn/trunk@373
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martinahansen [Tue, 12 May 2009 20:37:35 +0000 (20:37 +0000)]
split Biopieces.pm into BioRun.pm and Biopieces.pm
git-svn-id: http://biopieces.googlecode.com/svn/trunk@370
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martinahansen [Tue, 12 May 2009 15:44:25 +0000 (15:44 +0000)]
changed wiki renderer
git-svn-id: http://biopieces.googlecode.com/svn/trunk@369
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martinahansen [Wed, 17 Dec 2008 23:53:33 +0000 (23:53 +0000)]
fixed BED BUG
git-svn-id: http://biopieces.googlecode.com/svn/trunk@357
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martinahansen [Thu, 11 Dec 2008 08:06:42 +0000 (08:06 +0000)]
lots of PSL related changes
git-svn-id: http://biopieces.googlecode.com/svn/trunk@356
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martinahansen [Thu, 11 Dec 2008 05:05:17 +0000 (05:05 +0000)]
added exon capabilities to calc_fixedstep
git-svn-id: http://biopieces.googlecode.com/svn/trunk@355
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martinahansen [Thu, 11 Dec 2008 03:55:05 +0000 (03:55 +0000)]
calc_fixedstep reverted to perl
git-svn-id: http://biopieces.googlecode.com/svn/trunk@354
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martinahansen [Thu, 11 Dec 2008 00:54:44 +0000 (00:54 +0000)]
fixed carriage return bug in read_ucsc_config
git-svn-id: http://biopieces.googlecode.com/svn/trunk@353
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martinahansen [Tue, 9 Dec 2008 04:17:24 +0000 (04:17 +0000)]
added splice to get_genome_seq
git-svn-id: http://biopieces.googlecode.com/svn/trunk@346
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martinahansen [Tue, 9 Dec 2008 04:05:58 +0000 (04:05 +0000)]
fixed bug in remove_ucsc_tracks
git-svn-id: http://biopieces.googlecode.com/svn/trunk@344
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martinahansen [Mon, 8 Dec 2008 05:55:36 +0000 (05:55 +0000)]
minor fixes
git-svn-id: http://biopieces.googlecode.com/svn/trunk@342
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martinahansen [Mon, 8 Dec 2008 03:57:44 +0000 (03:57 +0000)]
added --check to a number of Biopieces
git-svn-id: http://biopieces.googlecode.com/svn/trunk@341
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martinahansen [Mon, 8 Dec 2008 02:44:01 +0000 (02:44 +0000)]
reverting to BED lists
git-svn-id: http://biopieces.googlecode.com/svn/trunk@339
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martinahansen [Mon, 8 Dec 2008 02:21:11 +0000 (02:21 +0000)]
changed BED.pm from list to hash
git-svn-id: http://biopieces.googlecode.com/svn/trunk@338
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martinahansen [Mon, 8 Dec 2008 00:32:14 +0000 (00:32 +0000)]
made check_bed optional
git-svn-id: http://biopieces.googlecode.com/svn/trunk@337
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martinahansen [Fri, 5 Dec 2008 06:02:53 +0000 (06:02 +0000)]
fixed CHR_BEG=0 bug
git-svn-id: http://biopieces.googlecode.com/svn/trunk@335
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martinahansen [Fri, 5 Dec 2008 05:25:24 +0000 (05:25 +0000)]
changed barray from ushort to uint
git-svn-id: http://biopieces.googlecode.com/svn/trunk@334
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martinahansen [Fri, 5 Dec 2008 05:16:39 +0000 (05:16 +0000)]
added bed2tag_contigs as backend to assemble_tag_contigs
git-svn-id: http://biopieces.googlecode.com/svn/trunk@333
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martinahansen [Fri, 5 Dec 2008 03:03:11 +0000 (03:03 +0000)]
added bed2tag_contigs.c
git-svn-id: http://biopieces.googlecode.com/svn/trunk@331
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martinahansen [Fri, 5 Dec 2008 02:52:08 +0000 (02:52 +0000)]
added bed2fixedstep.c as backend to calc_fixedstep
git-svn-id: http://biopieces.googlecode.com/svn/trunk@330
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martinahansen [Fri, 5 Dec 2008 01:14:50 +0000 (01:14 +0000)]
fixed bed2fixedstep.c
git-svn-id: http://biopieces.googlecode.com/svn/trunk@329
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martinahansen [Thu, 4 Dec 2008 10:18:04 +0000 (10:18 +0000)]
added python code
git-svn-id: http://biopieces.googlecode.com/svn/trunk@328
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martinahansen [Thu, 4 Dec 2008 04:05:27 +0000 (04:05 +0000)]
added bed2fixedstep.c
git-svn-id: http://biopieces.googlecode.com/svn/trunk@327
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martinahansen [Sun, 30 Nov 2008 09:20:03 +0000 (09:20 +0000)]
added barray.c and cleaned hash.c
git-svn-id: http://biopieces.googlecode.com/svn/trunk@326
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martinahansen [Fri, 28 Nov 2008 01:07:10 +0000 (01:07 +0000)]
removed GIW2008 poster to docs and added to featured dls instead
git-svn-id: http://biopieces.googlecode.com/svn/trunk@325
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martinahansen [Fri, 28 Nov 2008 00:58:24 +0000 (00:58 +0000)]
added GIW2008 poster to docs
git-svn-id: http://biopieces.googlecode.com/svn/trunk@324
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martinahansen [Thu, 27 Nov 2008 02:57:52 +0000 (02:57 +0000)]
added c power to calc_fixedstep
git-svn-id: http://biopieces.googlecode.com/svn/trunk@323
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martinahansen [Mon, 24 Nov 2008 02:27:44 +0000 (02:27 +0000)]
fixed bugs in calc_fixedstep
git-svn-id: http://biopieces.googlecode.com/svn/trunk@321
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martinahansen [Mon, 24 Nov 2008 00:33:54 +0000 (00:33 +0000)]
fixed bugs in assemble_tag_contigs
git-svn-id: http://biopieces.googlecode.com/svn/trunk@320
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martinahansen [Mon, 24 Nov 2008 00:13:00 +0000 (00:13 +0000)]
major code upgrade 1
git-svn-id: http://biopieces.googlecode.com/svn/trunk@319
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martinahansen [Fri, 21 Nov 2008 06:48:00 +0000 (06:48 +0000)]
fixed bug in compute
git-svn-id: http://biopieces.googlecode.com/svn/trunk@318
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martinahansen [Tue, 18 Nov 2008 04:01:34 +0000 (04:01 +0000)]
doc update
git-svn-id: http://biopieces.googlecode.com/svn/trunk@317
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martinahansen [Tue, 18 Nov 2008 03:59:51 +0000 (03:59 +0000)]
clean up
git-svn-id: http://biopieces.googlecode.com/svn/trunk@316
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martinahansen [Thu, 13 Nov 2008 01:22:00 +0000 (01:22 +0000)]
added -c switch to write_bed
git-svn-id: http://biopieces.googlecode.com/svn/trunk@310
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martinahansen [Tue, 11 Nov 2008 10:16:03 +0000 (10:16 +0000)]
added ucscMakeTracks -b run to remove_ucsc_tracks
git-svn-id: http://biopieces.googlecode.com/svn/trunk@308
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martinahansen [Tue, 11 Nov 2008 07:03:12 +0000 (07:03 +0000)]
finished remove_ucsc_tracks
git-svn-id: http://biopieces.googlecode.com/svn/trunk@307
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martinahansen [Tue, 11 Nov 2008 06:37:05 +0000 (06:37 +0000)]
fix date and time in ucsc config
git-svn-id: http://biopieces.googlecode.com/svn/trunk@305
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martinahansen [Tue, 11 Nov 2008 06:26:04 +0000 (06:26 +0000)]
added remove_ucsc_tracks
git-svn-id: http://biopieces.googlecode.com/svn/trunk@304
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martinahansen [Tue, 11 Nov 2008 04:33:37 +0000 (04:33 +0000)]
added -t to remove_mysql_tables
git-svn-id: http://biopieces.googlecode.com/svn/trunk@302
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martinahansen [Tue, 11 Nov 2008 04:24:45 +0000 (04:24 +0000)]
swapped bedSort with bed_sort
git-svn-id: http://biopieces.googlecode.com/svn/trunk@301
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martinahansen [Tue, 11 Nov 2008 04:22:48 +0000 (04:22 +0000)]
added mysql related Biopieces
git-svn-id: http://biopieces.googlecode.com/svn/trunk@300
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projects / biopieces.git / log