Oscar GG 6fbcec6d1d Ignore but warn on invalid EMBL DR lines (e.g. from RepBase) ...

Solves issue #1579.

Adds example with invalid DR structure, Tests/EMBL/RepBase23.02.embl

2018-04-03 13:35:53 +01:00

..

101ma_no_coords.embl

New test case, EMBL file missing seq coords

2017-08-22 10:28:28 +01:00

A04195.imgt

Rename EMBL-like IMGT example A04195_bad_indent.embl to A04195.imgt (see also Bug 3069)

2010-05-18 11:29:18 +01:00

AAA03323.embl

New EMBL test case, missing AC lines but does have a PA line. See bug 2477.

2008-03-27 11:38:46 +00:00

AE017046.embl

Include EMBL version of NC_005816 for cross checking with GenBank parser

2009-04-22 11:31:03 +00:00

DD231055_edited2.embl

Test EMBL file with missing sequence type in ID line.

2013-07-22 16:29:42 +01:00

DD231055_edited.embl

Cope with multipli-line KW entries in EMBL files

2013-03-12 10:54:43 +00:00

DS830848.embl

Matching EMBL and GenBank example with PR project line

2015-12-03 14:17:11 +00:00

embl_with_0_line.embl

Create embl_with_0nt_line.embl

2016-08-22 16:54:56 +01:00

epo_prt_selection.embl

Include EMBL example with max length line wrapping, and fix previous commit

2010-09-23 15:39:46 +01:00

hla_3260_sample.imgt

Sample data from IPD-IMGT/HLA database

2016-11-23 17:38:48 +00:00

Human_contigs.embl

Parse the contig (CO) lines in EMBL files (Bug 2980). Note the new EMBL output code doesn't yet use this information and currently will write a very long sequence of N characters instead (meaning test_SeqIO.py passes but is a bit slow)

2010-01-08 11:50:35 +00:00

kipo_prt_sample.embl

Sample of Patent Protein Sequence data from KIPO

2016-11-23 17:12:43 +00:00

location_wrap.embl

Fix EMBL locations that wrap at end with parentheses; handle EMBL records with unspecified DNA, RNA, protein type; thanks to thread at BioStar: http://biostar.stackexchange.com/questions/11741/problem-with-parsing-genome-file-embl-format-with-biopython

2011-09-03 20:02:06 -04:00

patents.embl

Test parsing EMBL-bank patent files

2013-10-24 21:38:38 +01:00

RepBase23.02.embl

Ignore but warn on invalid EMBL DR lines (e.g. from RepBase)

2018-04-03 13:35:53 +01:00

SC10H5.embl

Include a pre 2006 style EMBL file, SC10H5.embl, in test_SeqIO.py

2007-04-29 21:59:57 +00:00

TRBG361.embl

Sample file from EMBL

2007-02-07 17:53:54 +00:00

U87107.embl

Deal with EMBL sequence versions in the same way as for GenBank

2007-08-31 20:34:59 +00:00

xx_after_co.embl

GenBank: Improve error message from EMBL parser

2015-08-05 17:36:21 +01:00