https://github.com/mossmatters/HybPiper

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Revision Author Date Message Commit Date
092813c Update to v2.2.0 17 July 2024, 01:58:08 UTC
24e9652 Update to v2.2.0 17 July 2024, 01:56:34 UTC
974bb1a Update to v2.2.0 17 July 2024, 01:53:46 UTC
cf99079 Update to v2.2.0 17 July 2024, 01:52:46 UTC
d080ddb Update to v2.2.0 17 July 2024, 01:26:55 UTC
c279c84 Update to v2.2.0 17 July 2024, 01:00:23 UTC
66fe3c1 Update to v2.2.0 17 July 2024, 00:59:51 UTC
7c2f897 Update to v2.2.0 17 July 2024, 00:53:19 UTC
66e18b0 Update to v2.2.0 17 July 2024, 00:53:06 UTC
ff53e42 Update to v2.2.0 16 July 2024, 23:39:38 UTC
55fe81e Update to v2.2.0 16 July 2024, 23:02:25 UTC
98bc406 Update to v2.2.0 16 July 2024, 23:00:25 UTC
64a362f Update to v2.2.0 16 July 2024, 22:53:59 UTC
ab80856 Update to v2.2.0 16 July 2024, 22:52:18 UTC
d440b48 Update to v2.2.0 16 July 2024, 21:24:29 UTC
c4c0bea Update to v2.2.0 16 July 2024, 09:46:50 UTC
a5b5ead Update to v2.2.0 16 July 2024, 09:38:28 UTC
0c6cb85 Update to v2.2.0 16 July 2024, 06:26:28 UTC
35e1a14 Update to v2.2.0 16 July 2024, 06:23:36 UTC
9167c10 Update to v2.2.0 16 July 2024, 06:23:14 UTC
4b12850 Update to v2.2.0 16 July 2024, 06:19:55 UTC
33fa355 Update to v2.2.0 16 July 2024, 06:18:48 UTC
95a693d Update to v2.2.0 16 July 2024, 03:31:38 UTC
d78f4c9 Update to v2.2.0 16 July 2024, 02:46:26 UTC
2f2bfc6 Update to v2.2.0 16 July 2024, 02:16:55 UTC
99dc370 Update to v2.2.0 16 July 2024, 02:15:18 UTC
40fbe43 Update to v2.2.0 16 July 2024, 02:12:56 UTC
33f6d42 Update to v2.1.9 10 July 2024, 09:45:09 UTC
8054953 Update to v2.1.9 10 July 2024, 09:43:08 UTC
a636af7 Update to v2.1.9 10 July 2024, 09:42:46 UTC
a31f413 Update to v2.1.9 10 July 2024, 09:36:55 UTC
ff5852d Update to v2.1.9 10 July 2024, 09:36:43 UTC
e99db88 Update to v2.1.9 10 July 2024, 09:36:28 UTC
09f2d0c Update to v2.1.9 10 July 2024, 09:36:14 UTC
cf691a2 Update to v2.1.9 10 July 2024, 09:35:57 UTC
91b5343 Update to v2.1.9 10 July 2024, 09:35:30 UTC
4a4806b Update to v2.1.9 10 July 2024, 09:34:53 UTC
2cbffba Update to v2.1.9 09 July 2024, 23:16:09 UTC
7afc460 Update to v2.1.9 09 July 2024, 06:47:36 UTC
906cb50 Update to v2.1.9 09 July 2024, 06:40:30 UTC
614f085 Update to v2.1.9 09 July 2024, 06:40:20 UTC
d318d4a Update to v2.1.9 09 July 2024, 06:40:00 UTC
3a9d189 Update to v2.1.9 09 July 2024, 06:38:51 UTC
377626e Update to v2.1.9 09 July 2024, 02:33:55 UTC
84a0193 Update to v2.1.9 08 July 2024, 05:53:42 UTC
8330b1a Update to v2.1.9 08 July 2024, 03:50:23 UTC
3b1bb18 Update to v2.1.9 08 July 2024, 03:49:47 UTC
9c9ee92 Update to v2.1.9 08 July 2024, 03:49:25 UTC
8200a60 Update to v2.1.9 08 July 2024, 03:48:39 UTC
f41c04e Update to v2.1.9 08 July 2024, 01:56:50 UTC
a7dcb97 Update to v2.1.9 08 July 2024, 01:56:14 UTC
b3af123 Update to v2.1.9 08 July 2024, 01:41:46 UTC
030ed73 Update to v2.1.9 08 July 2024, 01:41:16 UTC
6ca4e4c Update to v2.1.9 08 July 2024, 01:40:16 UTC
8bca0cc Update to v2.1.9 08 July 2024, 00:52:21 UTC
b5cb913 Update to v2.1.9 08 July 2024, 00:51:45 UTC
d459e3c Update to v2.1.9 08 July 2024, 00:51:00 UTC
bde5efc Update to v2.1.9 06 July 2024, 21:15:43 UTC
9fe7ee6 Update to v2.1.9 06 July 2024, 21:09:56 UTC
bb583e0 Update to v2.1.9 06 July 2024, 04:42:59 UTC
b818445 Update to v2.1.9 05 July 2024, 08:35:24 UTC
40728cf Update to v2.1.9 05 July 2024, 06:47:03 UTC
b73ea3d Update to v2.1.9 04 July 2024, 21:39:59 UTC
0da552f Typo and docstring update 26 June 2024, 00:02:25 UTC
63d2a29 Merge remote-tracking branch 'origin/master' 25 June 2024, 04:03:40 UTC
0f8c2e1 Update README.md 25 June 2024, 04:03:09 UTC
9e6b6d4 Added new module filter_by_length.py and subcommand `hybpiper filter_by_length` 25 June 2024, 03:59:38 UTC
3eb2afc Added new module filter_by_length.py and subcommand `hybpiper filter_by_length` 12 June 2024, 03:57:37 UTC
75e443b Added new module filter_by_length.py and subcommand `hybpiper filter_by_length` 12 June 2024, 03:57:22 UTC
750d85b Remove import of MafftCommandline in fix_targetfile.py; update target file fasta header regex 11 June 2024, 04:00:30 UTC
a86dd18 Update README.md 29 May 2024, 23:50:44 UTC
9e09bd0 Update README.md 29 May 2024, 23:49:22 UTC
ffff130 Update README.md 29 May 2024, 02:31:53 UTC
8feb124 Update bioconda badge 09 May 2024, 04:57:53 UTC
3266ec0 Update version in README.md 09 May 2024, 04:56:19 UTC
5c97719 Update test dataset 09 May 2024, 04:55:00 UTC
5f0514c Bugfix trimming to first codon with similarity when trimming Exonerate HSP hits 09 May 2024, 03:24:49 UTC
cf94339 Use importlib.metadata rather than pkg_resources to check package versions, due to deprecation of latter 11 April 2024, 07:05:08 UTC
bdb09ba Do not allow quotation marks in target file fasta headers (issue #123, #125) 11 April 2024, 06:18:55 UTC
01394c9 Generate a warning rather than raising an error when no '*_genes_derived_from_putative_chimeric_stitched_contig.csv' found for a sample. 11 April 2024, 05:56:00 UTC
bd5267f stats and retrieve_sequences - do not allow slashes in sample names in namelist.txt 11 April 2024, 05:25:22 UTC
cadd1eb Add sys.exit() if dependencies not found 03 April 2024, 02:59:28 UTC
565e182 Update for v2.1.6 19 July 2023, 04:24:28 UTC
a98e5a6 Update for v2.1.6 19 July 2023, 04:01:22 UTC
de93f64 Change default heatmap DPI to 100, add --no_xlabels and --no_ylabels flags 19 July 2023, 04:00:09 UTC
d2d869d Add TotalBasesRecovered to filter_by options 19 July 2023, 03:59:05 UTC
cbf54d4 Add TotalBasesRecovered columns to stats report 19 July 2023, 03:58:16 UTC
41a6f84 bugfix break_on_hyphens 19 July 2023, 03:53:14 UTC
0b25700 Update no_intronerate for standalone 19 July 2023, 03:52:31 UTC
18b43df Update exonerate_contigs/intronerate error handling, update version handling. 19 July 2023, 03:47:56 UTC
caf2c9d Readjust figure size and DPI if auto-calculated size will be larger than 65536 pixels in either dimension 19 July 2023, 00:13:07 UTC
6645bec Readjust figure size and DPI if auto-calculated size will be larger than 65536 pixels in either dimension 19 July 2023, 00:12:59 UTC
3a84bdf Default heatmap DPI to 100, add --no_xlabels and --no_ylabels 18 July 2023, 22:43:47 UTC
93091c9 Print/log version 18 July 2023, 22:43:00 UTC
89165c1 Print/log version 18 July 2023, 22:42:38 UTC
358a56b Print/log version 18 July 2023, 22:42:15 UTC
841fb67 Update error handling for exonerate, update version 18 July 2023, 22:41:48 UTC
a4cda75 Change default DPI to 100 for heatmaps 18 July 2023, 06:05:45 UTC
898d08b Add version.py module 18 July 2023, 06:04:48 UTC
01e6bff import version from version.py module 18 July 2023, 06:04:29 UTC
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