diff --git a/form.yml.erb b/form.yml.erb index 24cbb0488d9dae58b762c2660e20f59335327543..e1acd0e6df481ef812e5148ec0eb6b19076b9fb0 100644 --- a/form.yml.erb +++ b/form.yml.erb @@ -41,10 +41,10 @@ attributes: version: widget: select - label: "IGV version" - help: "This defines the version of IGV you want to load." + label: "FSL version" + help: "This defines the version of FSL you want to load." options: - - [ "2.12.2-Java-11", "IGV/2.12.2-Java-11" ] + - [ "6.0.3", "FSL/6.0.3" ] form: - version diff --git a/icon.png b/icon.png index b65a9662082951acc9a64bdbeefeb78bd68521f8..4946174182bdf44e7a1ab591762d99895957320f 100644 Binary files a/icon.png and b/icon.png differ diff --git a/manifest.yml b/manifest.yml index 613ffadd63782148d26a41caa2ef8a914f2d89b3..7e19565a47c3d601a73c92b5d04f4e27ab35d162 100644 --- a/manifest.yml +++ b/manifest.yml @@ -1,11 +1,11 @@ --- -name: IGV +name: FSL - FMRIB Software Library category: Interactive Apps subcategory: GUIs role: batch_connect description: | - This app will launch a [Integrative Genomics Viewer(IGV)] on the [Cheaha]. You will be able - to interact with the IGV through a VNC session. + This app will launch a [FMRIB Software Library (FSL)] on [Cheaha]. You will be able + to interact with FSL through a VNC session. - [Integrative Genomics Viewer(IGV)]: https://software.broadinstitute.org/software/igv/ - [Cheaha]: https://docs.uabgrid.uab.edu + [FMRIB Software Library (FSL)]: https://fsl.fmrib.ox.ac.uk/fsl/docs/#/ + [Cheaha]: https://rc.uab.edu diff --git a/template/script.sh.erb b/template/script.sh.erb index 3d1c1e5aa106e30602994ba574c9a037565ba8d6..ca72f016b08c0b94869b75e508ae1388960779a8 100755 --- a/template/script.sh.erb +++ b/template/script.sh.erb @@ -25,13 +25,13 @@ cd "${HOME}" ) & # -# Start Integrative Genomics Viewer +# Start FMRIB Software Library # # Load the required environment -module load <%= context.version %> -# Launch IGV +module load FSL/6.0.3 +# Launch FSL module list set -x -igvtools_gui.command & -igv.sh +source /share/apps/rc/software/FSL/6.0.3/fsl/etc/fslconf/fsl.sh +fsl