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- Aug 06, 2012
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Andy Yates authored
[ENSCORESW-224]. Fix for multi-line SQ lines caused by large sequences being pushed through SeqDumper. Was never an issue before as our slices were never big enough. Applied the same fix to Genbank but it should be less of an issue due to it's formatting meaning we need larger slices to cause the issue.
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- Aug 04, 2012
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Monika Komorowska authored
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Monika Komorowska authored
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- Aug 03, 2012
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Kieron Taylor authored
Added a single warning for running without a CCDS database, and provided an exit for certain no-data situations.
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Kieron Taylor authored
Tests null cases and basic functioning of sorting algorithm.
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Kieron Taylor authored
New utility object for finding canonical transcripts. Refactoring of "set_canonical_transcript.pl" logic.
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- Aug 02, 2012
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Magali Ruffier authored
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Magali Ruffier authored
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Kieron Taylor authored
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Andy Yates authored
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Magali Ruffier authored
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Magali Ruffier authored
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Magali Ruffier authored
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Magali Ruffier authored
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Magali Ruffier authored
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Monika Komorowska authored
added method remove_source_priorities; it's called from xref_mapper.pl when option -recalc_display_xrefs is used
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Monika Komorowska authored
changed option -recalc_display_xrefs to boolean, it wasn't possible to recalculate display xrefs without using the xref db
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Magali Ruffier authored
slight memory requirement adjustements as well
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Magali Ruffier authored
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Magali Ruffier authored
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- Aug 01, 2012
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Monika Komorowska authored
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Monika Komorowska authored
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Monika Komorowska authored
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Monika Komorowska authored
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Magali Ruffier authored
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Monika Komorowska authored
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Monika Komorowska authored
set_display_xrefs deleted, no need to override this method as gene and transcript display xrefs are set separately in DisplayXrefs.pm
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Monika Komorowska authored
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Monika Komorowska authored
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Monika Komorowska authored
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Magali Ruffier authored
can be run across several hosts at a time
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Monika Komorowska authored
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- Jul 31, 2012
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Andy Yates authored
[ENSCORESW-220]. Being removed in favor of our new generate_default_aliases.pl code for the production DB.
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Andy Yates authored
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Monika Komorowska authored
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Andreas Kusalananda Kähäri authored
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Monika Komorowska authored
delete records from display_xref_priority and gene_desc_priority when status is reset to parsing_finished or mapping_finished
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Magali Ruffier authored
added option run_all to run even if there has been no change to the species
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Magali Ruffier authored
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Monika Komorowska authored
added tables display_xref_priority and gene_desc_priority - they are used in DisplayXrefs.pm http://www.ebi.ac.uk/panda/jira/browse/ENSCORESW-219
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