Bioconductor/bioc_docker issues and pull requests

#98 - Bump json from 1.8.1 to 2.3.1

Pull Request - State: open - Opened by dependabot[bot] over 4 years ago
Labels: dependencies

#97 - inconsistent tag names

Issue - State: closed - Opened by nsheff about 5 years ago - 1 comment

#96 - Failed attempt to run docker for deseq2

Issue - State: closed - Opened by claudiadast about 5 years ago - 1 comment

#95 - Bioc user issue

Pull Request - State: closed - Opened by nturaga about 5 years ago

#94 - Bump excon from 0.42.1 to 0.71.0

Pull Request - State: open - Opened by dependabot[bot] about 5 years ago
Labels: dependencies

#93 - Can't use R_LIBS_USER because they are overridden in .Renviron

Issue - State: closed - Opened by nsheff about 5 years ago - 5 comments
Labels: enhancement

#92 - Add libmariadb-dev instead of libmariadb-dev-compat

Pull Request - State: closed - Opened by nturaga over 5 years ago

#91 - bioconductor/devel_base2:latest image -- libssl1.0.2 issue

Issue - State: closed - Opened by nturaga over 5 years ago - 7 comments
Labels: bug

#90 - release_proteomics and devel_proteomics docker fail - Deprecate docker?

Issue - State: open - Opened by lshep over 5 years ago - 1 comment

#89 - Optimize src

Pull Request - State: closed - Opened by nturaga over 5 years ago - 8 comments
Labels: enhancement

#88 - Optimize src directory

Pull Request - State: closed - Opened by nturaga over 5 years ago
Labels: enhancement

#87 - Fix/update readme r36

Pull Request - State: closed - Opened by sneumann almost 6 years ago - 2 comments

#86 - proteomics: Rchemcpp fails due to staged install

Issue - State: closed - Opened by sneumann almost 6 years ago - 2 comments

#85 - Update release tag and fix R version in config.yml

Pull Request - State: closed - Opened by sneumann almost 6 years ago - 4 comments

#84 - Update for Release 3.9

Issue - State: open - Opened by sneumann almost 6 years ago - 1 comment

#83 - Move R-devel version hack from core/Dockerfile.in to base/Dockerfile.in

Pull Request - State: closed - Opened by sneumann almost 6 years ago - 1 comment

#82 - Explicitly set OpenBabel environment variables, closing #81

Pull Request - State: closed - Opened by sneumann almost 6 years ago

#81 - devel_mscore2: ChemminerOB fails to build

Issue - State: closed - Opened by sneumann almost 6 years ago

#80 - devel_mscore2: proFIA fails to byte-compile and prepare package for lazy loading

Issue - State: closed - Opened by sneumann almost 6 years ago - 2 comments

#79 - devel_mscore2: BiocVersion not available for R-devel

Issue - State: closed - Opened by sneumann almost 6 years ago - 7 comments

#78 - devel_mscore2: ChemmineR half-failure

Issue - State: closed - Opened by sneumann almost 6 years ago

#77 - Disable BiGGR, closes #76

Pull Request - State: closed - Opened by sneumann almost 6 years ago - 2 comments

#76 - devel_metabolomics2 fails due to BiGGR

Issue - State: closed - Opened by sneumann almost 6 years ago - 1 comment

#75 - Add docker hub / docker cloud build badges

Pull Request - State: closed - Opened by sneumann almost 6 years ago - 1 comment

#74 - Add system dependencies for package sf. Closes #71

Pull Request - State: closed - Opened by sneumann almost 6 years ago

#73 - remove spliceSites from build. Closes #55

Pull Request - State: closed - Opened by sneumann almost 6 years ago

#72 - Add dockerhub build badges

Pull Request - State: closed - Opened by sneumann almost 6 years ago - 4 comments

#71 - release metabolomics fails - R 3.5.3 Bioc 3.8

Issue - State: closed - Opened by lshep almost 6 years ago - 2 comments

#70 - add cytometry Container

Pull Request - State: closed - Opened by mikejiang almost 6 years ago - 4 comments

#69 - add new cytometry container

Issue - State: closed - Opened by mikejiang almost 6 years ago - 8 comments

#68 - Bug fix: .Rprofile needs to be in/home/rstudio, not in root.

Pull Request - State: closed - Opened by nturaga about 6 years ago - 1 comment

#67 - devel_metabolomics2 cancelled for timeout

Issue - State: closed - Opened by lshep about 6 years ago

#66 - install libpng-dev

Issue - State: closed - Opened by lwaldron about 6 years ago - 3 comments

#65 - Mounted volume for site library

Issue - State: closed - Opened by lwaldron about 6 years ago - 7 comments

#64 - Balancing build time for mscore and protmetcore

Pull Request - State: closed - Opened by sneumann over 6 years ago - 2 comments

#63 - release_protmetcore

Issue - State: closed - Opened by lshep over 6 years ago - 1 comment

#62 - devel_mscore2

Issue - State: closed - Opened by lshep over 6 years ago

#61 - devel_proteomics build cancelled due to timeout

Issue - State: closed - Opened by sneumann over 6 years ago - 7 comments

#60 - devel_proteomics: disable prot2D

Issue - State: closed - Opened by sneumann over 6 years ago

#59 - devel_proteomics: installing only 50 packages

Issue - State: closed - Opened by sneumann over 6 years ago

#58 - devel_metabolomics: disable mQTL.NMR

Issue - State: closed - Opened by sneumann over 6 years ago - 1 comment

#57 - devel_protmetcore2 not building/pushing

Issue - State: closed - Opened by sneumann over 6 years ago - 2 comments

#56 - mzR not installing in devel_mscore2:

Issue - State: closed - Opened by sneumann over 6 years ago - 2 comments

#55 - release_proteomics

Issue - State: closed - Opened by lshep over 6 years ago - 2 comments

#54 - release_metabolomics

Issue - State: closed - Opened by lshep over 6 years ago

#53 - Use BiocManager

Issue - State: closed - Opened by lwaldron over 6 years ago - 1 comment

#52 - base image should disable download progress bar

Issue - State: open - Opened by sneumann almost 7 years ago - 1 comment

#51 - devel_metabolomics2 exceeds build time on docker hub

Issue - State: closed - Opened by sneumann almost 7 years ago - 1 comment

#50 - ddalpha is victim of OOM killer

Issue - State: closed - Opened by sneumann almost 7 years ago - 3 comments

#49 - change logs

Issue - State: closed - Opened by Drwhit almost 7 years ago - 1 comment

#48 - add a couple of highly downloaded packages to protcore

Pull Request - State: closed - Opened by lgatto over 7 years ago

#47 - New protcore container

Issue - State: closed - Opened by lgatto over 7 years ago - 6 comments

#46 - add new protcore container

Pull Request - State: closed - Opened by lgatto over 7 years ago

#45 - test with 50 packages

Pull Request - State: closed - Opened by lgatto over 7 years ago

#44 - Testing with 65 packages

Pull Request - State: closed - Opened by lgatto over 7 years ago

#43 - test with half of the packages

Pull Request - State: closed - Opened by lgatto over 7 years ago

#42 - a test to fix proteomics

Pull Request - State: closed - Opened by lgatto over 7 years ago

#41 - devel_protmetcore2: annotation packages missing

Issue - State: closed - Opened by sneumann over 7 years ago - 2 comments

#40 - remove deps that are present in mscore

Pull Request - State: closed - Opened by lgatto almost 8 years ago - 3 comments

#39 - remove duplicated entries

Pull Request - State: closed - Opened by lgatto almost 8 years ago

#38 - Manually install gridExtra to avoid failure of ChemmineR …

Pull Request - State: closed - Opened by sneumann almost 8 years ago

#37 - use protmetcore as parent - see https://github.com/Bioconductor/bioc_…

Pull Request - State: closed - Opened by lgatto almost 8 years ago

#36 - release_protmetcore2 failling to build due to bioassayR, ChemmineR

Issue - State: closed - Opened by sneumann almost 8 years ago - 1 comment

#35 - revert back to using mscore as proteomics' parent

Pull Request - State: closed - Opened by lgatto almost 8 years ago

#34 - try with protmetcore as parent container

Pull Request - State: closed - Opened by lgatto almost 8 years ago

#33 - try with protmetcore as parent container

Pull Request - State: closed - Opened by lgatto almost 8 years ago

#32 - remove multiple libnetcdf-dev deps

Pull Request - State: closed - Opened by lgatto almost 8 years ago

#31 - Issues with proteomics container

Issue - State: closed - Opened by lgatto almost 8 years ago - 32 comments

#30 - install Cairo before Bioc packages

Pull Request - State: closed - Opened by lgatto almost 8 years ago - 2 comments

#29 - Online and offline parent containers

Issue - State: closed - Opened by lgatto almost 8 years ago - 2 comments

#28 - add additional libx11-dev dep to mscore for fix proteomics container

Pull Request - State: closed - Opened by lgatto almost 8 years ago

#27 - Fix build errors in proteomics containers

Pull Request - State: closed - Opened by lgatto almost 8 years ago - 1 comment

#26 - Errors building Cairo: libx11-dev dependency

Issue - State: closed - Opened by lgatto almost 8 years ago - 4 comments

#25 - Add mscore and proteomics badges

Pull Request - State: closed - Opened by lgatto almost 8 years ago

#24 - Change protmetcore parent to mscore

Pull Request - State: closed - Opened by sneumann almost 8 years ago

#23 - add hooks to proteomics container

Pull Request - State: closed - Opened by lgatto almost 8 years ago

#22 - Adds ammended mscore and proteomics containers

Pull Request - State: closed - Opened by lgatto almost 8 years ago - 1 comment

#21 - Adds mscore and proteomics containers

Pull Request - State: closed - Opened by lgatto almost 8 years ago - 2 comments

#20 - XCMS installation problem

Issue - State: closed - Opened by bevans-danforth almost 8 years ago - 7 comments

#19 - take use_r_devel as rake variable in protmetcore and metabolomics

Pull Request - State: closed - Opened by sneumann almost 8 years ago

#18 - RStudio update needed on devel docker containers?

Issue - State: closed - Opened by seandavi almost 8 years ago - 5 comments

#17 - Community contributions

Issue - State: closed - Opened by lgatto about 8 years ago - 15 comments

#16 - Rakefile: assigned but unused variable

Issue - State: closed - Opened by lgatto about 8 years ago - 2 comments

#15 - Use rake to generate docker files in out

Issue - State: closed - Opened by lgatto about 8 years ago - 13 comments

#14 - Core MS container

Issue - State: closed - Opened by lgatto about 8 years ago - 5 comments

#13 - Community maintained metabolomics container

Pull Request - State: closed - Opened by sneumann about 8 years ago

#12 - rake not working

Issue - State: closed - Opened by LiNk-NY about 8 years ago - 4 comments

#11 - Building devel/release up to metabolomics now on Phenomenal Jenkins

Pull Request - State: closed - Opened by sneumann over 8 years ago

#10 - Update dockerfiles to new release/devel, fix build for metabolomics

Pull Request - State: closed - Opened by sneumann over 8 years ago - 4 comments

#9 - Fix formatting

Pull Request - State: closed - Opened by lgatto over 8 years ago

#8 - Cleanup RUNs don't reduce image size

Issue - State: closed - Opened by SeijiSuenaga over 8 years ago - 2 comments

#7 - Remove explicit Jessie from sources.list

Pull Request - State: closed - Opened by sneumann over 8 years ago - 1 comment

#6 - Remove libgsl0ldbl from several Dockerfiles. Fix build documentation,…

Pull Request - State: closed - Opened by sneumann over 8 years ago - 7 comments

#5 - Add BUILD/CHECK reports to the docker images

Issue - State: open - Opened by sneumann over 8 years ago

#4 - Add Metabolomics BioC view

Pull Request - State: closed - Opened by sneumann over 8 years ago - 10 comments

#3 - Documentation: describe the build system

Issue - State: closed - Opened by sneumann over 8 years ago - 3 comments

#2 - Package dependencies

Issue - State: closed - Opened by lgatto over 9 years ago - 2 comments

#1 - Bioconductor version doesn't match R version

Issue - State: closed - Opened by thomaskelder almost 10 years ago - 1 comment

GitHub / Bioconductor/bioc_docker issues and pull requests