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Revision Author Date Message Commit Date
51ecff3 docs update 2 27 July 2018, 01:39:47 UTC
2300e45 docs update 27 July 2018, 00:03:16 UTC
67a513a a fix for sorting leaves by distance function 26 July 2018, 23:06:30 UTC
da193f0 updated newick packages source, now consistent with Bioconda version 26 July 2018, 20:31:49 UTC
119e6dc some auxialary scipts changes 18 July 2018, 20:14:16 UTC
2c85472 non-recursive dfs implementation + some logging improvements 18 July 2018, 20:12:54 UTC
626d759 some changes 09 July 2018, 19:18:39 UTC
0cb7679 custom block sizes 08 July 2018, 04:15:09 UTC
f453881 minimap verification script 06 July 2018, 02:36:51 UTC
71562fc a fix for empty parent scaffold during merging 20 December 2016, 19:41:37 UTC
0543d6d more informative message for empty permutation file 20 December 2016, 19:41:06 UTC
78e959d a fix for genomes with dots 03 December 2016, 01:15:25 UTC
70de692 centered logo 28 November 2016, 21:11:23 UTC
766b2ec figure fix 28 November 2016, 21:07:05 UTC
8322e1d logo 28 November 2016, 21:05:37 UTC
a603106 typo 28 November 2016, 20:39:26 UTC
c9b5d38 minor docs update 28 November 2016, 20:31:55 UTC
6eed507 news 28 November 2016, 20:22:31 UTC
a75e60e typo 28 November 2016, 20:19:24 UTC
26d4aac refinement disabled by default 28 November 2016, 20:18:42 UTC
4559980 documentation update 28 November 2016, 20:05:29 UTC
a7b6644 error if no unique synteny blocks 14 November 2016, 19:10:13 UTC
83789c3 Merge branch 'master' into devel 09 November 2016, 23:35:46 UTC
7ec4e12 counting target-specific breakpoints, --inMemory option for hal removed 09 November 2016, 23:35:13 UTC
ebd9205 Update README.md 07 November 2016, 01:04:53 UTC
83f232f Merge branch 'master' into devel 19 August 2016, 23:50:55 UTC
4bfbda6 fix negative gaps after assebly refinement 19 August 2016, 19:44:37 UTC
343c077 oups 09 August 2016, 01:25:37 UTC
4674e03 some refactoring and logging improvement 09 August 2016, 01:14:00 UTC
27e6ef3 readme 17 February 2016, 20:49:21 UTC
3bbd6c9 an option to disable chimera detection module + sorting output fasta 17 February 2016, 20:30:17 UTC
b3bf289 Merge branch 'master' into devel 17 February 2016, 19:29:27 UTC
024d279 tests fixed 23 January 2016, 02:49:25 UTC
8283a58 small improvement 23 January 2016, 02:13:28 UTC
73def46 a small fix in verify-order 23 January 2016, 02:11:45 UTC
b4ec394 test fix 19 January 2016, 02:30:05 UTC
f2e21cd a small fix for verification script 19 January 2016, 02:23:37 UTC
e1cc723 maf2synteny update 18 November 2015, 03:26:21 UTC
f95ea61 Update README.md 12 November 2015, 22:16:22 UTC
be8d780 Update README.md 12 November 2015, 22:14:48 UTC
2c599db gaps without upper limit 05 November 2015, 22:52:41 UTC
8d58eaf minor refactoring 04 November 2015, 22:33:06 UTC
246ddba a fix for gap estimation 04 November 2015, 03:56:48 UTC
596d7c0 some refactoring 01 November 2015, 02:40:24 UTC
1a3ae32 Update README.md 30 October 2015, 21:37:12 UTC
f37511c minor docs change 29 September 2015, 00:25:49 UTC
19d3ad4 wrong date 29 September 2015, 00:08:17 UTC
2284233 1.2 29 September 2015, 00:07:33 UTC
bdcccea Merge branch 'devel' 28 September 2015, 23:46:25 UTC
fd9b35c minor 28 September 2015, 23:46:14 UTC
fa6f861 Merge branch 'devel' of https://github.com/fenderglass/Ragout into devel 28 September 2015, 23:31:21 UTC
0a93120 a fix for empty links information 28 September 2015, 23:31:02 UTC
eb1692c documantation improved 28 September 2015, 18:38:57 UTC
04bb6e1 priority queue removed 25 September 2015, 20:57:32 UTC
2861ecb a fix in rearrangement projection 25 September 2015, 20:44:56 UTC
a3bd4e5 output generator refactoring 25 September 2015, 01:00:30 UTC
1338e4b partially unplaced contigs 24 September 2015, 02:04:50 UTC
581be6b deterministic tree construction + fix in sorting by tree distance 24 September 2015, 01:43:37 UTC
545c417 script renaming 24 September 2015, 01:42:03 UTC
061828f chromosome names in support fields 12 September 2015, 14:18:04 UTC
03e5624 ragout version in log 12 September 2015, 12:15:21 UTC
be33c34 small fix for merge algorithm 09 September 2015, 16:55:11 UTC
3c142fd a fix for one-contig scaffolds 09 September 2015, 16:40:21 UTC
610f222 beta version notice 25 August 2015, 17:46:15 UTC
11c2a94 Merge branch 'devel' into path_cover Syncronizing branches 25 August 2015, 17:29:16 UTC
9780da0 minor documentation change 25 August 2015, 17:17:56 UTC
3b9522a fixed one-contig scaffolds 20 August 2015, 11:49:14 UTC
8a30ee7 handling scaffolds from a single fragment 19 August 2015, 10:33:47 UTC
500b10e documentation improved 18 August 2015, 10:55:51 UTC
f85b758 naming reference as closest in the tree, distance estimation with tree 10 August 2015, 16:42:11 UTC
4f77e88 typo 10 August 2015, 09:50:38 UTC
6382865 some refactoring 10 August 2015, 09:45:17 UTC
3e1ab6d improved statistics output 05 August 2015, 10:39:57 UTC
289b958 maximum gap size, improved chomsomsome naming 05 August 2015, 09:49:25 UTC
860c877 small fix for rearrangement projection 04 August 2015, 10:39:05 UTC
1e4b01d correct links handling while reversing scaffold strand 01 August 2015, 15:55:20 UTC
802bfcf reference strand + AGP output 01 August 2015, 14:11:07 UTC
062b14c no negative gaps 31 July 2015, 10:55:55 UTC
fc2dc70 keep chromosomal structure while projecting rearrangements 30 July 2015, 11:19:41 UTC
792b8b9 new rearrangement policy 20 July 2015, 21:27:16 UTC
16acbb1 Merge branch 'path_cover' of https://github.com/fenderglass/Ragout into path_cover 10 July 2015, 02:11:36 UTC
6106ec3 improved chromosome report script 10 July 2015, 02:11:18 UTC
f6ba892 Merge branch 'path_cover' of github.com:fenderglass/Ragout into path_cover 10 July 2015, 02:08:54 UTC
406e8aa static linkage + smarter rearrangement projection 10 July 2015, 02:08:44 UTC
71e5d02 Merge branch 'path_cover' of https://github.com/fenderglass/Ragout into path_cover 19 June 2015, 23:08:02 UTC
b50bffe tweak in RR 19 June 2015, 23:07:41 UTC
fb59a4f minor stuff 19 June 2015, 23:07:33 UTC
c56c510 strand as in naming genome + chimeras through infinity edges 19 June 2015, 01:28:20 UTC
e524a69 turning of renumeration of unique repeats 18 June 2015, 19:46:32 UTC
1f57e6f lowcase characters in fasta 17 June 2015, 01:04:26 UTC
ed423ee Merge branch 'path_cover' of https://github.com/fenderglass/Ragout into path_cover 16 June 2015, 00:39:30 UTC
741a080 repeats resolving slightly improved 16 June 2015, 00:38:59 UTC
0e52269 tests working again 13 June 2015, 21:09:43 UTC
61b6952 cycle distance test 12 June 2015, 01:36:12 UTC
b4739b7 fix in gap calculating 09 June 2015, 22:39:10 UTC
49a46b1 naming_ref parameter + unlocalized contigs output 09 June 2015, 19:01:48 UTC
d5afacc fix? 08 June 2015, 18:58:53 UTC
c1d1ca8 chromosome naming (ad-hoc version) 07 June 2015, 21:54:18 UTC
5626517 run stages abstraction 30 May 2015, 03:08:21 UTC
8231d56 logging + chromosome script 30 May 2015, 02:21:56 UTC
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