Commits · 4f9d18985673c7beb8bb91241ae3a16da9eaf386 · violethaze74 / Artemis

Jan 18, 2010

changes to allow file of file names to be readable from a URL · 4f9d1898

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@13046 ee4ac58c-ac51-4696-9907-e4b3aa274f04

4f9d1898

Jan 15, 2010

fix search for X on reverse strand · 61423bc5

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@13019 ee4ac58c-ac51-4696-9907-e4b3aa274f04

61423bc5

update · c707b472

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@13014 ee4ac58c-ac51-4696-9907-e4b3aa274f04

c707b472

show insertions by default · 4b0c5e4b

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@13011 ee4ac58c-ac51-4696-9907-e4b3aa274f04

4b0c5e4b

allow userplot to be loaded as a URL · 95265b86

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@13010 ee4ac58c-ac51-4696-9907-e4b3aa274f04

95265b86

Jan 14, 2010

update · 3ad38819

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@13004 ee4ac58c-ac51-4696-9907-e4b3aa274f04

3ad38819

ability to read file of BAM filenames from the command line · 66e9f503

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@13003 ee4ac58c-ac51-4696-9907-e4b3aa274f04

66e9f503

change to utility methods to protected static · 3444811d

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@13002 ee4ac58c-ac51-4696-9907-e4b3aa274f04

3444811d

update · 49d45449

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@13000 ee4ac58c-ac51-4696-9907-e4b3aa274f04

49d45449

Jan 13, 2010

comment out code not used · 52e346f1

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12985 ee4ac58c-ac51-4696-9907-e4b3aa274f04

52e346f1

use FileSelectionDialog to read bam files · 6f094aa1

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12984 ee4ac58c-ac51-4696-9907-e4b3aa274f04

6f094aa1

implement being able to read from a file of file names · d750e3f4

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12983 ee4ac58c-ac51-4696-9907-e4b3aa274f04

d750e3f4

speed up and fix stack view · 7d101dd9

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12982 ee4ac58c-ac51-4696-9907-e4b3aa274f04

7d101dd9

add isFminPartial and isFmaxPartial to list of non transferable qualifiers · 0e883713

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12981 ee4ac58c-ac51-4696-9907-e4b3aa274f04

0e883713

Jan 12, 2010

reading bam from http sites · 28dfe467

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12974 ee4ac58c-ac51-4696-9907-e4b3aa274f04

28dfe467

update · d412a0bb

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12965 ee4ac58c-ac51-4696-9907-e4b3aa274f04

d412a0bb

Jan 08, 2010

update year · e3d499ad

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12883 ee4ac58c-ac51-4696-9907-e4b3aa274f04

e3d499ad

update · 20e27547

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12879 ee4ac58c-ac51-4696-9907-e4b3aa274f04

20e27547

fix for getTranscriptFromName() · 4c820dc7

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12878 ee4ac58c-ac51-4696-9907-e4b3aa274f04

4c820dc7

add product_synonym · 6dd35785

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12877 ee4ac58c-ac51-4696-9907-e4b3aa274f04

6dd35785

Jan 07, 2010

update · 88725245

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12871 ee4ac58c-ac51-4696-9907-e4b3aa274f04

88725245

change to comma separated · 3da71270

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12870 ee4ac58c-ac51-4696-9907-e4b3aa274f04

3da71270

split on colon and space · 834eb9c8

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12869 ee4ac58c-ac51-4696-9907-e4b3aa274f04

834eb9c8

update · bf2230f6

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12868 ee4ac58c-ac51-4696-9907-e4b3aa274f04

bf2230f6

add the ability to add user plots from a JVM option (userplot) · 6ee8c0bd

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12867 ee4ac58c-ac51-4696-9907-e4b3aa274f04

6ee8c0bd

Jan 06, 2010

fix for drawing SNPs on a linear plot · 40e177b5

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12825 ee4ac58c-ac51-4696-9907-e4b3aa274f04

40e177b5

update · ab2a7ecf

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12823 ee4ac58c-ac51-4696-9907-e4b3aa274f04

ab2a7ecf

BamView version · eb940851

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12822 ee4ac58c-ac51-4696-9907-e4b3aa274f04

eb940851

give a version · ddb769ac

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12821 ee4ac58c-ac51-4696-9907-e4b3aa274f04

ddb769ac

Jan 05, 2010

remove version from picard and sam jar names · 1d81abfd

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12811 ee4ac58c-ac51-4696-9907-e4b3aa274f04

1d81abfd

update · 284755df

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12810 ee4ac58c-ac51-4696-9907-e4b3aa274f04

284755df

use ItemListener for JCheckBoxes · ffb5099c

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12809 ee4ac58c-ac51-4696-9907-e4b3aa274f04

ffb5099c

Jan 04, 2010

change to BamView constructor · bb86b353

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12807 ee4ac58c-ac51-4696-9907-e4b3aa274f04

bb86b353

add functionality to add multiple BAM files to the same view · 79b870cb

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12806 ee4ac58c-ac51-4696-9907-e4b3aa274f04

79b870cb

remove picard version number from jar name · c73f51d4

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12803 ee4ac58c-ac51-4696-9907-e4b3aa274f04

c73f51d4

update picard version and remove version number from jar name · 0ba400e6

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12802 ee4ac58c-ac51-4696-9907-e4b3aa274f04

0ba400e6

picard version removed from jar name · 20875b3c

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12801 ee4ac58c-ac51-4696-9907-e4b3aa274f04

20875b3c

picard version · a5b83e3a

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12800 ee4ac58c-ac51-4696-9907-e4b3aa274f04

a5b83e3a

Dec 09, 2009

only show gene builder overview if a gene · 6ef2f5c6

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12591 ee4ac58c-ac51-4696-9907-e4b3aa274f04

6ef2f5c6

change default gene · 157236b3

tjc authored 15 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@12590 ee4ac58c-ac51-4696-9907-e4b3aa274f04

157236b3

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