Commits · master · Astrocyte / Workflows / BioHPC / astrocyte_example_wordcount

15 Aug, 2022 1 commit
- Update container registry · 10787f8c
  Peng Lian authored Aug 15, 2022
  
  10787f8c
09 Aug, 2022 1 commit
- Init test version 2.0.0 · 931b5ba6
  Peng Lian authored Aug 09, 2022
  
  931b5ba6
04 Aug, 2021 2 commits
- fix bug with wordcount ranks in example · ce376025
  Erand Smakaj authored Aug 04, 2021
  
  ce376025
- Containerize all processes · 95fcb2bc
  Peng Lian authored Aug 04, 2021
  
  95fcb2bc
03 Aug, 2021 1 commit
- Update gitlab-ci · c5c7cd53
  Peng Lian authored Aug 03, 2021
  
  c5c7cd53
28 Jul, 2021 2 commits
- Fix blank output file issue · d958eade
  Peng Lian authored Jul 28, 2021
  
  d958eade
- Fix the /vagrant missing error · c3042afd
  Peng Lian authored Jul 28, 2021
  
  c3042afd
27 Jul, 2021 2 commits
- Merge branch 'containerized_vizapp' into 'master' · 051382b6
  Peng Lian authored Jul 28, 2021
```
Fix to defaults so that singularity is in the biohpc.config as the default,...

Closes #1

See merge request biohpc/astrocyte_example_wordcount!4
```
  051382b6
- Fix to defaults so that singularity is in the biohpc.config as the default,... · 108ed90e
  Devin OKelly authored Jul 28, 2021 and Peng Lian committed Jul 28, 2021
  
  108ed90e
24 Jun, 2021 1 commit

Merge branch 'LocalDockerRegistry' into 'master' · 96d532f2

Peng Lian authored Jun 24, 2021

Merge new CI pipeline with the changes from Peng.

See merge request biohpc/astrocyte_example_wordcount!3

96d532f2

15 Jun, 2021 3 commits
- Modify container configs to use centos8 for wordcounts · 9de147c8
  Devin OKelly authored Jun 15, 2021
  
  9de147c8
- Modify astrocyte_pkg.yml to use 0.4.1 version of astrocyte · c275c56b
  Devin OKelly authored Jun 15, 2021
  
  c275c56b
- Comment up .gitlab-ci.yml · 0fcff023
  Devin OKelly authored Jun 15, 2021
  
  0fcff023
14 Jun, 2021 10 commits
- Merge branch 'LocalDockerRegistry' of... · 706e728c
  Devin OKelly authored Jun 14, 2021
```
Merge branch 'LocalDockerRegistry' of git.biohpc.swmed.edu:s190450/astrocyte_example_wordcount into LocalDockerRegistry
```
  706e728c
- Update main.nf and biohpc_singularity_gitlab.config to use correct container invoke · 3e4b12b9
  Devin OKelly authored Jun 14, 2021
  
  3e4b12b9
- Update biohpc_singularity_gitlab.config · ff03378d
  Devin OKelly authored Jun 14, 2021
  
  ff03378d
- Update .gitlab-ci.yml file · 52430372
  Devin OKelly authored Jun 14, 2021
  
  52430372
- Update biohpc_singularity_gitlab.config · 744c37a9
  Devin OKelly authored Jun 14, 2021
  
  744c37a9
- Update .gitlab-ci.yml file · 7f6620e2
  Devin OKelly authored Jun 14, 2021
  
  7f6620e2
- Merge branch 'LocalDockerRegistry' of... · 9af5bb5a
  Devin OKelly authored Jun 14, 2021
```
Merge branch 'LocalDockerRegistry' of git.biohpc.swmed.edu:s190450/astrocyte_example_wordcount into LocalDockerRegistry
```
  9af5bb5a
- [ci skip] Adding new configurations for pulling from the gitlab registry · 567e7180
  Devin OKelly authored Jun 14, 2021
  
  567e7180
- Update .gitlab-ci.yml file · 0cb47c84
  Devin OKelly authored Jun 14, 2021
  
  0cb47c84
- Update .gitlab-ci.yml file · 89b79a90
  Devin OKelly authored Jun 14, 2021
  
  89b79a90
11 Jun, 2021 6 commits
- Update .gitlab-ci.yml file · b1bdbe74
  Devin OKelly authored Jun 11, 2021
```
[ci skip]
```
  b1bdbe74
- Merge branch 'LocalDockerRegistry' of... · 6c7d6267
  Devin OKelly authored Jun 11, 2021
```
Merge branch 'LocalDockerRegistry' of git.biohpc.swmed.edu:s190450/astrocyte_example_wordcount into LocalDockerRegistry
```
  6c7d6267
- Merge CI changes and add more parsing to the CI pipeline · 4d5ee3b9
  Devin OKelly authored Jun 11, 2021
  
  4d5ee3b9
- Move config for containers out into the config files instead of main.nf · 34827e55
  Devin OKelly authored Jun 11, 2021
  
  34827e55
- Update .gitlab-ci.yml file · 2033a84f
  Devin OKelly authored Jun 11, 2021
  
  2033a84f
- Update .gitlab-ci.yml file · 67bc14f5
  Devin OKelly authored Jun 11, 2021
  
  67bc14f5
10 Jun, 2021 1 commit
- Update runner tags to restrict to a particular branch · d0e7a849
  Devin OKelly authored Jun 10, 2021
  
  d0e7a849
09 Jun, 2021 5 commits
- Merge commit 'da98f976 ' into LocalDockerRegistry · f3f04e45
  Devin OKelly authored Jun 09, 2021
  
  f3f04e45
- Fix ownership for files created by docker process, see if that fixes the... · da98f976
  Devin OKelly authored Jun 09, 2021
```
Fix ownership for files created by docker process, see if that fixes the non-appearing files in the workflow.
```
  da98f976
- Change astrocyte run to quiet instead of background to see if tests after that line succeed. · 2b6c7ee1
  Devin OKelly authored Jun 09, 2021
  
  2b6c7ee1
- Fix CI lint issues, use escaped colon sequence \x3A · c55c2e38
  Devin OKelly authored Jun 09, 2021
  
  c55c2e38
- Switchable configs for astrocyte_pkg.yml runs of astrocyte. · 4b4cc7a7
  Devin OKelly authored Jun 09, 2021
  
  4b4cc7a7
08 Jun, 2021 4 commits
- Test running instead of testing with astrocyte_cli · 50489b22
  Devin OKelly authored Jun 08, 2021
  
  50489b22
- Update astrocyte_cli to take Options, remove NXF_DEBUG · 62d6a335
  Devin OKelly authored Jun 08, 2021
  
  62d6a335
- Fixed nextflow flags, removed astrocyte_cli verbosity · cbe7e6e4
  Devin OKelly authored Jun 08, 2021
  
  cbe7e6e4
- Add background processing for the Nextflow stages, as they otherwise stall with SIGTTOU · 199723ff
  Devin OKelly authored Jun 08, 2021
  
  199723ff
07 Jun, 2021 1 commit
- Modify git strategy to always clone · acf301a1
  Devin OKelly authored Jun 07, 2021
  
  acf301a1