Open bioc-workshop-dev opened 1 month ago
/request id="bioc2024bamSliceR" title="Package Demo: bamSliceR description="A standardized pipeline for extracting, annotating, and analyzing genomic variants across large controlled-access repositories." section="Bioc2024" startfile="README.md" source="https://github.com/trichelab/bamSliceR" pkglist="trichelab/bamSliceR,BSgenome.Hsapiens.UCSC.hg38,BiocParallel,Homo.sapiens,TxDb.Hsapiens.UCSC.hg38.knownGene,VariantTools,biomaRt,data.table,ensemblVEP,gampR,httr,jsonlite,rtracklayer,stringr"
/test id="bioc2024bamSliceR" title="Package Demo: bamSliceR description="A standardized pipeline for extracting, annotating, and analyzing genomic variants across large controlled-access repositories." section="Bioc2024" startfile="README.md" source="https://github.com/trichelab/bamSliceR" pkglist="trichelab/bamSliceR,BSgenome.Hsapiens.UCSC.hg38,BiocParallel,Homo.sapiens,TxDb.Hsapiens.UCSC.hg38.knownGene,VariantTools,biomaRt,data.table,ensemblVEP,gampR,httr,jsonlite,rtracklayer,stringr"
AUTO-GENERATED RESPONSE Your request has been received and has passed initial screening. :sparkles:
Below are the detected values:
id='bioc2024bamSliceR'
title='Package Demo: bamSliceR description='
description=''
section='Bioc2024'
source='https://github.com/trichelab/bamSliceR'
docker=''
port='8787'
command='echo "setwd(\"/home/rstudio\"); setHook(\"rstudio.sessionInit\", function(newSession) { if (newSession) rstudioapi::filesPaneNavigate(getwd()) }, action = \"append\")" > /home/rstudio/.Rprofile; /init'
pkglist='trichelab/bamSliceR,BSgenome.Hsapiens.UCSC.hg38,BiocParallel,Homo.sapiens,TxDb.Hsapiens.UCSC.hg38.knownGene,VariantTools,biomaRt,data.table,ensemblVEP,gampR,httr,jsonlite,rtracklayer,stringr'
vignettes=''
If these are as expected, no further action is needed at this time. Please wait for an admin's response. If any changes are needed, please re-run the /request action with desired values.
AUTO-GENERATED RESPONSE Action Log Your request has passed initial checks and is being built and/or deployed to the test instance. Please wait further updates.
AUTO-GENERATED RESPONSE
Action Log
Your request has been received but is currently failing its deployment on test.
If the corresponding /request
command has passed with the same parameters, this is likely a bug.
/test id="bioc2024bamSliceR" title="Package Demo: bamSliceR description="A standardized pipeline for extracting, annotating, and analyzing genomic variants across large controlled-access repositories." section="Bioc2024" startfile="README.md" source="https://github.com/trichelab/bamSliceR" pkglist="trichelab/bamSliceR,BSgenome.Hsapiens.UCSC.hg38,BiocParallel,Homo.sapiens,TxDb.Hsapiens.UCSC.hg38.knownGene,VariantTools,biomaRt,data.table,ensemblVEP,gampR,httr,jsonlite,rtracklayer,stringr"
AUTO-GENERATED RESPONSE Action Log Your request has passed initial checks and is being built and/or deployed to the test instance. Please wait further updates.
AUTO-GENERATED RESPONSE
Action Log
Your request has been received but is currently failing its deployment on test.
If the corresponding /request
command has passed with the same parameters, this is likely a bug.
/test id="bioc2024bamSliceR" title="Package Demo: bamSliceR" description="A standardized pipeline for extracting, annotating, and analyzing genomic variants across large controlled-access repositories" section="Bioc2024" startfile="README.md" source="https://github.com/trichelab/bamSliceR" pkglist="trichelab/bamSliceR,BSgenome.Hsapiens.UCSC.hg38,BiocParallel,Homo.sapiens,TxDb.Hsapiens.UCSC.hg38.knownGene,VariantTools,biomaRt,data.table,ensemblVEP,gampR,httr,jsonlite,rtracklayer,stringr" docker="ghcr.io/bioconductor/bioconductor:3.18"
AUTO-GENERATED RESPONSE Action Log Your request has passed initial checks and is being built and/or deployed to the test instance. Please wait further updates.
AUTO-GENERATED RESPONSE
Action Log
Your request has been received but is currently failing its deployment on test.
If the corresponding /request
command has passed with the same parameters, this is likely a bug.
/test id="bioc2024bamSliceR" title="Package Demo: bamSliceR" description="A standardized pipeline for extracting, annotating, and analyzing genomic variants across large controlled-access repositories" section="Bioc2024" startfile="README.md" source="https://github.com/trichelab/bamSliceR" pkglist="trichelab/bamSliceR" docker="ghcr.io/bioconductor/bioconductor:3.18"
AUTO-GENERATED RESPONSE Action Log Your request has passed initial checks and is being built and/or deployed to the test instance. Please wait further updates.
AUTO-GENERATED RESPONSE Action Log Your workshop has been successfully deployed to the test instance. :sparkles: Please test your workshop on the development instance and notify us via comment when you deem it ready for public consumption on the production instance.
/test id="bamslicerbioc2024" title="Package Demo: bamSliceR" description="A standardized pipeline for extracting, annotating, and analyzing genomic variants across large controlled-access repositories" section="Bioc2024" startfile="README.md" source="https://github.com/trichelab/bamSliceR" pkglist="trichelab/bamSliceR" docker="ghcr.io/bioconductor/bioconductor:3.18"
AUTO-GENERATED RESPONSE Action Log Your request has passed initial checks and is being built and/or deployed to the test instance. Please wait further updates.
AUTO-GENERATED RESPONSE Action Log Your workshop has been successfully deployed to the test instance. :sparkles: Please test your workshop on the development instance and notify us via comment when you deem it ready for public consumption on the production instance.
DO NOT INCLUDE REQUESTS IN THE FIRST COMMENT. PLEASE POST THIS TEMPLATE UNCHANGED THEN FOLLOW ITS INSTRUCTIONS IN A NEW COMMENT
General Notes
This repository serves as a mostly automated pipeline for deploying workshops to the Bioconductor Workshop.
Bot Commands
Issues in this repository are monitored to by a bot. All commands need to be written on the first line of the comment, in a single line.
Example Docker Request
Note. The example
/request
is on multiple lines for readability.Additional Workshop Information
Expected Number of Participants: 20
Workshop Date(s): July 26, 2024 - July 26, 2024
Workshop Start Time (approx.): 00:45