Hi, I use qAmplicon to design amplicons for variant verification. I have been using this software for a long time, and it works as expected. But I tried to use the "dbsnp" option, and nothing happens... It seems that the option is not taken into account. This software is a few years old, and I can't find anything about it. Do you have any feedback on this particular problem? Thank you for your help, Vincent
move plugin application to subprojects
apply plugin: 'application' from mainClassName
add subporject/build/lib to root adama lib
copy jar files to adama at subproject stage
use file.absolutePath to get root adama/build/lib
move repeated task from sub project to root
rm ini4j
get ini4j from mavenCentral
tidy up all sub build file
fixing build: qsv testcompile
fixing build
fix build problem
delete debug code
solve build dependecy locateion
mistake hdf-java on dependency
update build on qbasepileup
update build in qpileup
add unzipped dependency for qbasepileup
add unzip for dependency folder in build of qpileup
update build file, download dependency from maven
remove debug code, add unit test
add an temporary mode Vcf2mafTmp which can convert old style vcf to maf with overlap pileup counts
change optional maf column ACSNP to ACLAP
add base quality check for snps on overlap mode
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tidy-up
use junit to handle file creation and deletion
use junit to handle file creation and deletion
fixing errors
tidy-up
don't write to file
new test
fixing errors
use Map.forEach
fixing errors
modularise code
remove unused code
private final
remove unnecessary sc
clean unit test output
removed unnecessary casts
removed unnecessary casts
update stream usage
dont stream
make final
make final
removed unused vars, make final
make final and private
make static vars final, use from options
make vars static and final and private
removed unused methods
trim some fat
minor change
cast to appropriate type
use ChrPosition rather than ChrRangePosition to query map
add ACLAP for overlap pileup on qannotate
merged from branch manually, snpPileupMode is replaced by overlapMode
minor updates
if single sample mode, don't attempt to populate normal values
revise build
updated method name
minor updates
minor updates
more efficient algorithms
minor updates
minor updates
refactored to perform a little quicker
make method static, add test
add mergeVcfRec
remove qmaths
merged from long-lived qsnp branch
merging
merged from trunk
merging
merging
merging
snp chip work
removed commented out code
updates
additional test
support snp chip files
merged from trunk
merge from trunk
more appropriate name
test for new class
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renameing tag
removing more unwanted tags
removed commented out code
removed unwanted tags
removed build-20 tag
removed build-1 tag
removed commented out lines again
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removed commented out lines
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Labeled automatically by TeamCity
Labeled automatically by TeamCity
Labeled automatically by TeamCity