diff --git a/README.md b/README.md index 6a7ed1a..f9cb95d 100644 --- a/README.md +++ b/README.md @@ -9,8 +9,8 @@ Haplocheck accepts BAM/CRAM files **OR** VCF files (generated with [mutserve](ht ## Install Haplocheck Workflow - curl -s install.cloudgene.io | bash - ./cloudgene install https://github.com/genepi/haplocheck/releases/download/v1.2.1/haplocheck.zip + curl -s install.cloudgene.io | bash -s 2.3.3 + ./cloudgene install https://github.com/genepi/haplocheck/releases/download/v1.2.2/haplocheck.zip ## Run Haplocheck Workflow @@ -20,7 +20,7 @@ Calculate contamination status of 1000 Genomes Phase3 samples (n = 2,504): wget https://github.com/genepi/haplocheck/raw/master/test-data/contamination/1000G/all/1000g-nobaq.vcf.gz #Run haplocheck -./cloudgene run haplocheck --files 1000g-nobaq.vcf.gz --output results +./cloudgene run haplocheck@1.2.2 --files 1000g-nobaq.vcf.gz --output results #Open results in Browser firefox results/report/report.html diff --git a/files/cloudgene.yaml b/files/cloudgene.yaml index 47e46c5..c25b441 100644 --- a/files/cloudgene.yaml +++ b/files/cloudgene.yaml @@ -1,7 +1,7 @@ name: Haplocheck id: haplocheck description: A fast method to detect sample contamination in mtDNA and WGS data.
To learn more about haplocheck, please have a look at https://mitoverse.readthedocs.io/en/latest/. -version: 1.2.1 +version: 1.2.2 workflow: steps: diff --git a/files/haplocheck.html b/files/haplocheck.html index b1ff9ed..898dba0 100644 --- a/files/haplocheck.html +++ b/files/haplocheck.html @@ -48,7 +48,7 @@
diff --git a/pom.xml b/pom.xml index a2c91e3..2a656eb 100644 --- a/pom.xml +++ b/pom.xml @@ -5,7 +5,7 @@ genepi haplocheck - 1.2.1 + 1.2.2 jar haplocheck