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Revision 1.6 - (view) (download) (as text) (annotate) - [select for diffs]
Mon Dec 5 18:56:37 2005 UTC (14 years, 2 months ago) by olson
Branch: MAIN
CVS Tags: HEAD, caBIG-05Apr06-00, caBIG-13Feb06-00, mgrast_dev_02212011, mgrast_dev_02222011, mgrast_dev_03252011, mgrast_dev_03312011, mgrast_dev_04012011, mgrast_dev_04052011, mgrast_dev_04082011, mgrast_dev_04132011, mgrast_dev_05262011, mgrast_dev_06072011, mgrast_dev_08022011, mgrast_dev_08112011, mgrast_dev_10262011, mgrast_dev_12152011, mgrast_rel_2008_0625, mgrast_rel_2008_0806, mgrast_rel_2008_0917, mgrast_rel_2008_0919, mgrast_rel_2008_0923, mgrast_rel_2008_0924, mgrast_rel_2008_1110, mgrast_rel_2008_1110_v2, mgrast_release_3_0, mgrast_release_3_0_1, mgrast_release_3_0_2, mgrast_release_3_0_3, mgrast_release_3_0_4, mgrast_release_3_1_0, mgrast_release_3_1_1, mgrast_release_3_1_2, mgrast_version_3_2, myrast_33, myrast_rel40, rast_2008_0924, rast_rel_2008_04_23, rast_rel_2008_06_16, rast_rel_2008_06_18, rast_rel_2008_07_21, rast_rel_2008_08_07, rast_rel_2008_09_29, rast_rel_2008_09_30, rast_rel_2008_10_09, rast_rel_2008_10_29, rast_rel_2008_11_24, rast_rel_2008_12_18, rast_rel_2009_02_05, rast_rel_2009_03_26, rast_rel_2009_05_18, rast_rel_2009_07_09, rast_rel_2009_0925, rast_rel_2010_0118, rast_rel_2010_0526, rast_rel_2010_0827, rast_rel_2010_0928, rast_rel_2010_1206, rast_rel_2011_0119, rast_rel_2011_0928, rast_rel_2014_0729, rast_rel_2014_0912, rast_release_2008_09_29
Changes since 1.5: +17 -0 lines
Diff to previous 1.5
Add license words.

Revision 1.5 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Oct 12 19:04:06 2005 UTC (14 years, 4 months ago) by efrank
Branch: MAIN
CVS Tags: caBIG-00-00-00
Changes since 1.4: +32 -1 lines
Diff to previous 1.4
gff2seed:	use description, Note, and nci_annotation in that order to define
		annotatioin and assignment.  ncbi is source for the final case.
		otherwise, set to gff2seed

embl2gff:	include unigene, EMBL: and protein_id. include assignment from
		parse_mart (below) into Note attribute in gff

parse_mart:	pull in assignemtn from transcript feature file.

Revision 1.4 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Oct 5 21:38:21 2005 UTC (14 years, 4 months ago) by efrank
Branch: MAIN
CVS Tags: caBIG-dataload-0
Changes since 1.3: +1 -1 lines
Diff to previous 1.3
embl2gff- add ensembl protein id
gff2seed- sort the fetaures before writing to tbl file.
parse_mart- rename ChromBand to just Band

Revision 1.3 - (view) (download) (as text) (annotate) - [select for diffs]
Thu Sep 29 18:56:40 2005 UTC (14 years, 4 months ago) by efrank
Branch: MAIN
Changes since 1.2: +1 -1 lines
Diff to previous 1.2
parse_mart:  print UniProt not Uniprot
embl2gff- fix broken lookup into extra stuff by removing Foo: from gene and transcript

Revision 1.2 - (view) (download) (as text) (annotate) - [select for diffs]
Fri Sep 23 16:19:41 2005 UTC (14 years, 5 months ago) by efrank
Branch: MAIN
Changes since 1.1: +87 -96 lines
Diff to previous 1.1
embl - generalizations and dispersions.
parse_mart- do uniprot id xrefs too

Revision 1.1 - (view) (download) (as text) (annotate) - [select for diffs]
Wed Sep 21 23:44:57 2005 UTC (14 years, 5 months ago) by efrank
Branch: MAIN
embl2gff- update to read a file of additional information to collate into the alias
and attribute information.  actually, it shoves it all into the alias right now.

parse_mart- grabs cytogenetic locatin out of ensembl mart and dumps into a file
to be read in as extra info by embl2gff.  trivial stuff except for finding
the !@#$# file and understanding what th efields mean.

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