diff --git a/doc/release-notes.md b/doc/release-notes.md index 3ffb2e8ae5..821f1998c4 100644 --- a/doc/release-notes.md +++ b/doc/release-notes.md @@ -1,54 +1,5 @@ # release notes ## current release -### release-v8-20191104 -- release date: 2019-11-04 -- status: available -- changes: - - Updated clinical file - - fixed error in `primary_site`: [#214](https://github.com/AlexsLemonade/OpenPBTA-analysis/issues/214) - - Updated ControlFreeC TSV file - - added `tumor_ploidy` and updated `genotype` to `segment_genotype`: [PR comment](https://github.com/AlexsLemonade/OpenPBTA-analysis/pull/216#discussion_r341868007) - - Updated RNA-Seq FPKM merge files - - fixed ID merge error: [#221](https://github.com/AlexsLemonade/OpenPBTA-analysis/issues/221) -- folder structure: -``` -data -└── release-v8-20191104 - ├── CHANGELOG.md - ├── StrexomeLite_Targets_CrossMap_hg38_filtered_chr_prefixed.bed - ├── StrexomeLite_hg38_liftover_100bp_padded.bed - ├── WGS.hg38.lancet.300bp_padded.bed - ├── WGS.hg38.lancet.unpadded.bed - ├── WGS.hg38.mutect2.unpadded.bed - ├── WGS.hg38.strelka2.unpadded.bed - ├── WGS.hg38.vardict.100bp_padded.bed - ├── WXS.hg38.100bp_padded.bed - ├── md5sum.txt - ├── pbta-cnv-cnvkit.seg.gz - ├── pbta-cnv-controlfreec.tsv.gz - ├── pbta-fusion-arriba.tsv.gz - ├── pbta-fusion-starfusion.tsv.gz - ├── pbta-gene-counts-rsem-expected_count.polya.rds - ├── pbta-gene-counts-rsem-expected_count.stranded.rds - ├── pbta-gene-expression-kallisto.polya.rds - ├── pbta-gene-expression-kallisto.stranded.rds - ├── pbta-gene-expression-rsem-fpkm.polya.rds - ├── pbta-gene-expression-rsem-fpkm.stranded.rds - ├── pbta-histologies.tsv - ├── pbta-isoform-counts-rsem-expected_count.polya.rds - ├── pbta-isoform-counts-rsem-expected_count.stranded.rds - ├── pbta-snv-lancet.vep.maf.gz - ├── pbta-snv-mutect2.vep.maf.gz - ├── pbta-snv-strelka2.vep.maf.gz - ├── pbta-snv-vardict.vep.maf.gz - ├── pbta-sv-manta.tsv.gz - ├── independent-specimens.wgs.primary-plus.tsv - ├── independent-specimens.wgs.primary.tsv - ├── independent-specimens.wgswxs.primary-plus.tsv - └── independent-specimens.wgswxs.primary.tsv -``` - -## archived release ### release-v7-20191031 - release date: 2019-10-31 :jack_o_lantern: - status: available @@ -100,6 +51,7 @@ data └── independent-specimens.wgswxs.primary.tsv ``` +## archived release ### release-v6-20191030 - release date: 2019-10-30 - status: available diff --git a/download-data.sh b/download-data.sh index c6f54c3ed7..2eb5150f2e 100755 --- a/download-data.sh +++ b/download-data.sh @@ -4,7 +4,7 @@ set -o pipefail # Use the OpenPBTA bucket as the default. URL=${URL:-https://s3.amazonaws.com/kf-openaccess-us-east-1-prd-pbta/data} -RELEASE=${RELEASE:-release-v8-20191104} +RELEASE=${RELEASE:-release-v7-20191031} # Remove symlinks in data find data -type l -delete