| Previous changeset 50:2e3de43ff471 (2019-07-10) Next changeset 52:124b7fd92a3e (2021-02-25) |
|
Commit message:
Uploaded |
|
modified:
README.md igblast/igblast.sh |
| b |
| diff -r 2e3de43ff471 -r e35b82f31ec7 README.md --- a/README.md Wed Jul 10 03:38:24 2019 -0400 +++ b/README.md Thu Aug 08 07:40:36 2019 -0400 |
| [ |
| @@ -1,6 +1,7 @@ # ARGalaxy Immune Repertoire This is the GitHub repository for the ARGalaxy Immune repertoire pipeline. -The Galaxy tool version can be found [here](https://toolshed.g2.bx.psu.edu/repository/browse_repositories_i_own?sort=name&operation=view_or_manage_repository&id=2e457d63170a4b1c). +The Galaxy tool version can be found [here](https://toolshed.g2.bx.psu.edu/repository/browse_repositories_i_own?sort=name&operation=view_or_manage_repository&id=2e457d63170a4b1c). +The docker version can be found [here](https://github.com/ErasmusMC-Bioinformatics/ARGalaxy-docker). ## Overview |
| b |
| diff -r 2e3de43ff471 -r e35b82f31ec7 igblast/igblast.sh --- a/igblast/igblast.sh Wed Jul 10 03:38:24 2019 -0400 +++ b/igblast/igblast.sh Thu Aug 08 07:40:36 2019 -0400 |
| b |
| @@ -23,6 +23,6 @@ echo "$input $species $locus $output" -java -Xmx16G -jar $IGBLASTWRP/igblastwrp.jar -p 4 -S $species -R $locus ${input} $PWD/blasted_output 2>&1 +java -Xmx16G -jar $dir/igblastwrp.jar -p 4 -S $species -R $locus ${input} $PWD/blasted_output 2>&1 Rscript --verbose $dir/igblast.r "$PWD/blasted_output.L2.txt" "$output" 2>&1 |