Commits · 7d8eddda9ee1dc43b5523b40f9efbcd6784c06cc · violethaze74 / Artemis

Sep 21, 2009

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11842 ee4ac58c-ac51-4696-9907-e4b3aa274f04

7d8eddda

update · 3d7d0ead

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11841 ee4ac58c-ac51-4696-9907-e4b3aa274f04

3d7d0ead

revalidate when zooming in · 0625b19a

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11840 ee4ac58c-ac51-4696-9907-e4b3aa274f04

0625b19a

add option for read/write polypeptide domains · bcc2c0c0

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11839 ee4ac58c-ac51-4696-9907-e4b3aa274f04

bcc2c0c0

added writedb_entry docs · 9ce9dc91

gv1 authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11838 ee4ac58c-ac51-4696-9907-e4b3aa274f04

9ce9dc91

fix to read/write polypeptide domains · a4df5b13

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11837 ee4ac58c-ac51-4696-9907-e4b3aa274f04

a4df5b13

fix to load dbxrefs for polypeptide domains · a1a55835

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11836 ee4ac58c-ac51-4696-9907-e4b3aa274f04

a1a55835

add polypeptide_domain · 106d1ea7

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11834 ee4ac58c-ac51-4696-9907-e4b3aa274f04

106d1ea7

Sep 19, 2009

fixes to zooming · 1c693e2e

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11833 ee4ac58c-ac51-4696-9907-e4b3aa274f04

1c693e2e

update alignment viewer · a37134b1

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11832 ee4ac58c-ac51-4696-9907-e4b3aa274f04

a37134b1

Sep 18, 2009

add ReadAndWriteEntry appender · 70a1fcdd

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11812 ee4ac58c-ac51-4696-9907-e4b3aa274f04

70a1fcdd

Sep 17, 2009

fix for writing EMBL submission from the database and adding the bam/sam view · 6a501103

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11811 ee4ac58c-ac51-4696-9907-e4b3aa274f04

6a501103

auto hide buttons and further updates · 511c30a7

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11810 ee4ac58c-ac51-4696-9907-e4b3aa274f04

511c30a7

Sep 16, 2009

add isObsolete · 65cd619b

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11799 ee4ac58c-ac51-4696-9907-e4b3aa274f04

65cd619b

add ncRNA and isObsolete · e0903e0f

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11798 ee4ac58c-ac51-4696-9907-e4b3aa274f04

e0903e0f

change to locus_tag · fcc206dc

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11796 ee4ac58c-ac51-4696-9907-e4b3aa274f04

fcc206dc

changes to assist integration into Artemis · 92438cba

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11795 ee4ac58c-ac51-4696-9907-e4b3aa274f04

92438cba

modified to handle -c parameters · 196c8031

gv1 authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11790 ee4ac58c-ac51-4696-9907-e4b3aa274f04

196c8031

Sep 15, 2009

update picard · bf048616

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11770 ee4ac58c-ac51-4696-9907-e4b3aa274f04

bf048616

Sep 14, 2009

add picard / sam library · a9e6e617

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11768 ee4ac58c-ac51-4696-9907-e4b3aa274f04

a9e6e617

update · a471cc70

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11767 ee4ac58c-ac51-4696-9907-e4b3aa274f04

a471cc70

add caching · 9a37c7d6

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11766 ee4ac58c-ac51-4696-9907-e4b3aa274f04

9a37c7d6

fix lazy for loading · 480ae065

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11765 ee4ac58c-ac51-4696-9907-e4b3aa274f04

480ae065

Sep 04, 2009

picard library for SAM/BAM file manipulation · 87cd67a5

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11729 ee4ac58c-ac51-4696-9907-e4b3aa274f04

87cd67a5

zoom buttons · 28777b05

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11728 ee4ac58c-ac51-4696-9907-e4b3aa274f04

28777b05

use AlignmentBlocks to the sequence and to display SNPs · 0519b98c

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11727 ee4ac58c-ac51-4696-9907-e4b3aa274f04

0519b98c

updates · 70900f3c

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11722 ee4ac58c-ac51-4696-9907-e4b3aa274f04

70900f3c

Sep 03, 2009

changes to use Picard · 501fc6e3

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11714 ee4ac58c-ac51-4696-9907-e4b3aa274f04

501fc6e3

added an extra # to sequence-region pragma · 1d8196ed

gv1 authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11711 ee4ac58c-ac51-4696-9907-e4b3aa274f04

1d8196ed

add GFF header to stream · 85ce6800

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11710 ee4ac58c-ac51-4696-9907-e4b3aa274f04

85ce6800

revert back to version 1.65 · 2cb15b64

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11709 ee4ac58c-ac51-4696-9907-e4b3aa274f04

2cb15b64

removed debugging statement · 395d1445

gv1 authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11708 ee4ac58c-ac51-4696-9907-e4b3aa274f04

395d1445

removed gff-version to gff3 export · ae964582

gv1 authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11707 ee4ac58c-ac51-4696-9907-e4b3aa274f04

ae964582

copy the header if a GFFDocumentEntry is created from a DatabaseDocumentEntry · 575dc2eb

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11706 ee4ac58c-ac51-4696-9907-e4b3aa274f04

575dc2eb

improve message to user · 3729986d

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11696 ee4ac58c-ac51-4696-9907-e4b3aa274f04

3729986d

use getChadoGeneByAnyCurrentName if gene is not found · 1ae80748

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11695 ee4ac58c-ac51-4696-9907-e4b3aa274f04

1ae80748

add getChadoGeneByAnyCurrentName() · d431fb5e

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11694 ee4ac58c-ac51-4696-9907-e4b3aa274f04

d431fb5e

Sep 02, 2009

added gff-version to gff3 export · c9e97a52

gv1 authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11691 ee4ac58c-ac51-4696-9907-e4b3aa274f04

c9e97a52

Sep 01, 2009

use reference sequence · 1c2c28eb

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11687 ee4ac58c-ac51-4696-9907-e4b3aa274f04

1c2c28eb

update · f5d4a56b

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11680 ee4ac58c-ac51-4696-9907-e4b3aa274f04

f5d4a56b

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