Skip to main content

Browse the archive

swh:1:snp:5789d5563ae0ff1fac9d4620526a6e02863df326
Revision 8ff1cbef5fdfd753d85c90a5c5b9c57f4936cdc0 authored by Ian Ferguson on 04 April 2013, 22:41:58 UTC, committed by Scott Smith on 05 April 2013, 15:02:59 UTC 
Cleaned up and removed defaults from GMT/Varscan/*
 
Removed default reference sequence parameters from
GMT/Varscan/CopyNumberParallel, CopySegmentParallel, QuickReadcounts,
Readcounts, Somatic, SomaticParallel, SomaticParallelFilter, and
SomaticParallelMerge. If the reference sequence was marked as
is_optional => 1 in those classes, it is now marked as is_optional => 0.
Changed the reference sequence parameters to is_optional => 0 in
Consensus, NormalizeCopySegments, and SomaticMt (they had recently had
their default reference sequence removed). Also reformatted class
definitions for all modules under GMT/Varscan (added line breaks and
fixed indentation for better consistency and readability).
1 parent c11ace8
History
Tip revision: 696b1e76360241cd1d426993324c79599aacac69 authored by Thomas B. Mooney on 13 March 2024, 13:58:29 UTC
Merge pull request #2077 from tmooney/retry_connections
Tip revision: 696b1e7
File Mode Size
alignment_summary @ 8932081
bam-readcount @ c044123
bam-window @ 572bfaf
bassovac @ 41b7bc4
bin
bmm @ a1d0107
breakdancer @ 8f07f3d
configuration-manager @ f719544
copyCat @ 9ab5dde
cron @ 9bb5f1f
fqgrep @ fe0206d
genome-db-cosmic @ bdec904
genome-db-omim @ d9b949a
genome-db-pfam @ e5acfb0
genome-music
genome-music-testdata @ 860ea75
genome-snapshot-deps @ be0fd25
genome-snapshot-testdata @ 72c0ded
genome-sys-user
genome-webserver
genome-www
getopt-complete @ 790cd66
gms-config @ 6ccaa62
gmt-sys-vmbuilder
graphite @ f552b86
init
jenkins @ 2ce2994
joinx @ e83e763
lib
pairoscope @ 91c203a
sciClone @ d91163a
scripts
sff2fastq @ b815f97
somatic-sniper @ d736546
tgi-etc @ 08ba1a6
tigra @ 6fe6b74
tigra-sv @ 715dda8
ur @ 1babdee
varscan @ 83ae9d8
vendor
workflow @ 192ebaa
.gitignore -rw-r--r-- 93 bytes
.gitmodules -rw-r--r-- 8.9 KB
.mailmap -rw-r--r-- 301 bytes
.test-tracker.conf -rw-r--r-- 329 bytes
LICENSE -rw-r--r-- 7.5 KB
README -rw-r--r-- 154 bytes
WHERE_TO_PUT_CODE -rw-r--r-- 2.4 KB
compile_modules.t -rw-r--r-- 1.6 KB
create-c-project.sh -rwxr-xr-x 2.9 KB
create-project -rwxr-xr-x 2.9 KB
test-data-relocate-me l--------- 46 bytes

README

back to top