Commits · e84e979e1d24dc831dab65c1d977a40af00db25f · violethaze74 / Artemis

Mar 18, 2011

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15754 ee4ac58c-ac51-4696-9907-e4b3aa274f04

e84e979e

remove annotation that is not needed · 58431406

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15753 ee4ac58c-ac51-4696-9907-e4b3aa274f04

58431406

bcf test · d6963eb9

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15752 ee4ac58c-ac51-4696-9907-e4b3aa274f04

d6963eb9

MAL1 test data · 95e05483

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15751 ee4ac58c-ac51-4696-9907-e4b3aa274f04

95e05483

fix for multiple samples · 9cece20f

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15750 ee4ac58c-ac51-4696-9907-e4b3aa274f04

9cece20f

Mar 17, 2011

add more to testFeatureWriteFastaSNP() · 9c108ccb

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15745 ee4ac58c-ac51-4696-9907-e4b3aa274f04

9c108ccb

change visibility of wrapString() · 3648e75a

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15744 ee4ac58c-ac51-4696-9907-e4b3aa274f04

3648e75a

fix for insertions · e6b6d703

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15743 ee4ac58c-ac51-4696-9907-e4b3aa274f04

e6b6d703

Mar 16, 2011

add feature test · 5432ef46

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15742 ee4ac58c-ac51-4696-9907-e4b3aa274f04

5432ef46

changes for test suite · 5823c826

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15740 ee4ac58c-ac51-4696-9907-e4b3aa274f04

5823c826

fix for insertions and changes for test suite · ab386f07

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15739 ee4ac58c-ac51-4696-9907-e4b3aa274f04

ab386f07

fix for headless · 6efc447f

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15737 ee4ac58c-ac51-4696-9907-e4b3aa274f04

6efc447f

set headless · 71e7b491

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15736 ee4ac58c-ac51-4696-9907-e4b3aa274f04

71e7b491

fix for test suite · f4bfdfc9

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15735 ee4ac58c-ac51-4696-9907-e4b3aa274f04

f4bfdfc9

change for test suite · 164dfc7c

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15734 ee4ac58c-ac51-4696-9907-e4b3aa274f04

164dfc7c

change for test suite · 50779b57

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15733 ee4ac58c-ac51-4696-9907-e4b3aa274f04

50779b57

tests for writing out sequences based on VCF data · a13476fe

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15732 ee4ac58c-ac51-4696-9907-e4b3aa274f04

a13476fe

change for artemis_options · c77d1613

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15731 ee4ac58c-ac51-4696-9907-e4b3aa274f04

c77d1613

fix for insertion · e23f8c58

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15729 ee4ac58c-ac51-4696-9907-e4b3aa274f04

e23f8c58

Mar 15, 2011

changes for test · dea77072

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15726 ee4ac58c-ac51-4696-9907-e4b3aa274f04

dea77072

fix for blast+ output · 4ff25f31

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15725 ee4ac58c-ac51-4696-9907-e4b3aa274f04

4ff25f31

remove unused import · 468e6d06

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15724 ee4ac58c-ac51-4696-9907-e4b3aa274f04

468e6d06

fix for writing out VCF from HTTP · 8866d301

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15723 ee4ac58c-ac51-4696-9907-e4b3aa274f04

8866d301

fix for reverse strand · b12080fb

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15722 ee4ac58c-ac51-4696-9907-e4b3aa274f04

b12080fb

catch NullPointerException from TabixReader · 09c8d323

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15721 ee4ac58c-ac51-4696-9907-e4b3aa274f04

09c8d323

catch exceptions from TabixReader · 7ce1e92a

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15720 ee4ac58c-ac51-4696-9907-e4b3aa274f04

7ce1e92a

optimise writing region · 559076e0

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15719 ee4ac58c-ac51-4696-9907-e4b3aa274f04

559076e0

update · 2157ea85

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15718 ee4ac58c-ac51-4696-9907-e4b3aa274f04

2157ea85

add BCFReader · 04a715dd

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15716 ee4ac58c-ac51-4696-9907-e4b3aa274f04

04a715dd

add logger · aaa57652

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15715 ee4ac58c-ac51-4696-9907-e4b3aa274f04

aaa57652

remove unused import · 89f16c23

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15714 ee4ac58c-ac51-4696-9907-e4b3aa274f04

89f16c23

Mar 14, 2011

chunk regions · 89273dee

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15713 ee4ac58c-ac51-4696-9907-e4b3aa274f04

89273dee

change visibility of iterator · 055ba5b2

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15712 ee4ac58c-ac51-4696-9907-e4b3aa274f04

055ba5b2

Mar 11, 2011

write/view reference sequence as well as vcf sequences · 5d4b8d09

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15704 ee4ac58c-ac51-4696-9907-e4b3aa274f04

5d4b8d09

Mar 10, 2011

update · f8ece7b4

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15702 ee4ac58c-ac51-4696-9907-e4b3aa274f04

f8ece7b4

tidy · 871d00be

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15701 ee4ac58c-ac51-4696-9907-e4b3aa274f04

871d00be

fix for changing window size in coverage plots · 10ff9298

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15700 ee4ac58c-ac51-4696-9907-e4b3aa274f04

10ff9298

add constructor and make border · 86e7dd82

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15699 ee4ac58c-ac51-4696-9907-e4b3aa274f04

86e7dd82

Mar 09, 2011

update · d4300777

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15689 ee4ac58c-ac51-4696-9907-e4b3aa274f04

d4300777

space reads out more when orientation is displayed · 2e4218d4

tjc authored 14 years ago

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@15688 ee4ac58c-ac51-4696-9907-e4b3aa274f04

2e4218d4

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