broadinstitute viral-ngs-deploy issues

broadinstitute / viral-ngs-deploy

Deployment files related to https://github.com/broadinstitute/viral-ngs

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gatk install difficulty

#56 jb013b closed 6 years ago
6
update easy-deploy script self-update URL

#55 tomkinsc closed 7 years ago
0
gsutil in Docker image is not parallelizing

#54 dpark01 opened 7 years ago
0
remove the -build suffix from the docker tag name

#53 dpark01 closed 7 years ago
0
comment out Docker image thinning for now

#52 tomkinsc closed 7 years ago
0
gsutil broken within Docker image

#51 dpark01 closed 7 years ago
5
squash the Docker images at build time

#50 tomkinsc closed 7 years ago
3
switch to phusion/baseimage-docker

#49 tomkinsc closed 7 years ago
0
Add optional argument for setup-git to checkout branch

#48 yesimon closed 7 years ago
1
Allow user to optionally specify branch when installing from git

#47 tomkinsc opened 7 years ago
0
consolidate channel spec and alter precedence

#46 tomkinsc closed 7 years ago
0
pin env to python3.6

#45 tomkinsc closed 7 years ago
0
adapt ansible role and virtualbox config to use easy-deploy script

#44 tomkinsc opened 7 years ago
0
add requirements-conda-tests.txt to install_viral_ngs_conda_dependencies

#43 tomkinsc closed 7 years ago
0
raise docker build failure in travis

#42 tomkinsc closed 7 years ago
0
easy-dsub.sh s/wget/curl/ in some scenarios

#41 dpark01 closed 7 years ago
0
add easy dsub wrapper script

#40 tomkinsc closed 7 years ago
0
add google cloud sdk to path

#39 tomkinsc closed 7 years ago
0
thin Docker image

#38 tomkinsc closed 7 years ago
0
easy-deploy create-project now more idempotent

#37 tomkinsc closed 7 years ago
0
add rsync to Docker image

#36 tomkinsc closed 7 years ago
0
add gcloud binaries to docker image

#35 tomkinsc closed 7 years ago
0
update docs to mention root shell access to Docker container

#34 tomkinsc closed 7 years ago
0
remove /opt/viral-ngs chown

#33 tomkinsc closed 7 years ago
0
some pipefitting to output docker output and also capture the final build ID

#32 tomkinsc closed 7 years ago
0
Fix color escape on PS1 including closing )

#31 yesimon closed 7 years ago
0
Reorganized Dockerfile and enabled host user to write to data volume

#30 biocyberman closed 7 years ago
1
Improved docer build command.

#29 biocyberman closed 7 years ago
0
Handling of write permissiong to docker's /data volume

#28 biocyberman opened 7 years ago
3
Upgrade to Ubuntu 16.04 and some updates

#27 biocyberman closed 7 years ago
1
exit/return conditional added in sections related to conda activation

#26 tomkinsc closed 7 years ago
0
refactor tests-unit.sh

#25 tomkinsc closed 7 years ago
0
update docker readme

#24 tomkinsc closed 7 years ago
0
remove conda recipe from viral-ngs-deploy

#23 tomkinsc closed 7 years ago
0
add unit test for easy install script with long path prefix; add this to Travis matrix

#22 tomkinsc closed 7 years ago
0
extend maximum conda prefix length

#21 tomkinsc closed 7 years ago
0
docker images no longer have 'v' tag prefix

#20 tomkinsc closed 7 years ago
0
add shebang line to tests-unit.sh

#19 tomkinsc closed 7 years ago
0
update docker docs

#18 tomkinsc closed 7 years ago
0
remove deprecated --email parameter from docker login

#17 tomkinsc closed 7 years ago
0
add changes to build for and push to docker hub

#16 tomkinsc closed 7 years ago
0
specify python 3.5; remove new trailing comma from version string; remove conda pinning for now

#15 tomkinsc closed 7 years ago
0
Properly escape PS1

#14 yesimon closed 7 years ago
0
Add support for git based viral-ngs installs

#13 yesimon closed 7 years ago
7
change UGER memory request in example install command

#12 tomkinsc closed 8 years ago
0
double quote "$@" in env_wrapper.sh

#11 tomkinsc closed 8 years ago
0
Dockerfile now uses wrapper script to avoid .bashrc

#10 tomkinsc closed 8 years ago
0
add function to allow easy deploy script to self-update

#9 tomkinsc closed 8 years ago
0
add conda-forge to channel dependencies

#8 tomkinsc closed 8 years ago
0
unset JAVA_HOME if set, so we can use the conda-supplied java

#7 tomkinsc closed 8 years ago
0