attribute name change in ensembl: external_gene_id to external_gene_name
Require bam output file
Clarified several microarray tools.
Text polishes.
Update release date in release notes
Merge branch 'master' into release
Build 3.1.0
Update download-tools.sh, add it to tar
Clarified gene set test and its manual.
Merge branch 'master' of https://github.com/chipster/chipster.git
Remove missing edirect.R from misc-module.xml
Merge branch 'release'
Clarified gene set test and its manual.
Add bwa-mem tools to ngs-module, remove bwasw from there
Fix bwa-mem tools in ngs-module.xml
Merge branch 'release'
Polished the BWA MEM tools.
Polished the BWA MEM tools.
SSL in VM
Https compatible input stream reading