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Added new app icon, updated contact to go to Engage, and added an app category. #22

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Feb 4, 2024
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2 changes: 2 additions & 0 deletions .github/workflows/action.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -7,6 +7,8 @@ on:
pull_request:
branches:
- main
schedule:
- cron: '3 1 4,15 * *'
workflow_dispatch:

jobs:
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8 changes: 7 additions & 1 deletion scripts/rwrtools-env-create.sh
Original file line number Diff line number Diff line change
Expand Up @@ -4,12 +4,18 @@ set -x
set -e

source /opt/conda3/etc/profile.d/conda.sh
conda create -v -n rwrtools -c conda-forge r-base=4.1.0 r-devtools
conda create -v -n rwrtools \
-c conda-forge r-base=4.1.0 r-devtools
conda activate rwrtools
git clone https://github.com/dkainer/RWRtoolkit.git
cd RWRtoolkit
# see also refdata-load.sh
git reset --hard 360f33794f7d81c254b7d8d16ef7649d0412f790
R --no-restore --no-save << HEREDOC
require(devtools)
install_version("igraph", version = "1.6.0", repos = "http://cran.us.r-project.org")
install_version("supraHex", version = "1.32.0", repos = "https://bioconductor.org/packages/3.14/bioc")
install_version("dnet", version = "1.1.7", repos = "http://cran.us.r-project.org")
devtools::install()

HEREDOC
4 changes: 2 additions & 2 deletions ui/narrative/methods/run_rwr_cv/display.yaml
Original file line number Diff line number Diff line change
@@ -1,15 +1,15 @@
#
# define display information
#
name: RWRtools CV
name: Find Gene Set Interconnectivity using Cross Validation with RWRtools CV

tooltip: |
RWRtools CV (Cross Validation) performs cross validation on a single gene
set, finding the RWR rank of the left-out genes.

screenshots: []

icon: icon.png
icon: RWRTools.png

#
# Configure the display and description of parameters
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Binary file added ui/narrative/methods/run_rwr_cv/img/RWRTools.png
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4 changes: 2 additions & 2 deletions ui/narrative/methods/run_rwr_cv/spec.json
Original file line number Diff line number Diff line change
Expand Up @@ -3,8 +3,8 @@
"authors": [
"dakota"
],
"contact": "",
"categories": ["active"],
"contact": "[email protected]",
"categories": ["active","comparative_genomics"],
"widgets": {
"input": null,
"output": null
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4 changes: 2 additions & 2 deletions ui/narrative/methods/run_rwr_loe/display.yaml
Original file line number Diff line number Diff line change
@@ -1,14 +1,14 @@
#
# define display information
#
name: RWRtools LOE
name: Find Functional Context using Lines of Evidence with RWRtools LOE

tooltip: |
RWRtools LOE (Lines of Evidence) uses RWR to rank genes in the network starting from a Feature Set.

screenshots: []

icon: icon.png
icon: RWRTools.png

#
# Configure the display and description of parameters
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Binary file added ui/narrative/methods/run_rwr_loe/img/RWRTools.png
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4 changes: 2 additions & 2 deletions ui/narrative/methods/run_rwr_loe/spec.json
Original file line number Diff line number Diff line change
Expand Up @@ -3,8 +3,8 @@
"authors": [
"dakota"
],
"contact": "",
"categories": ["active"],
"contact": "[email protected]",
"categories": ["active","comparative_genomics"],
"widgets": {
"input": null,
"output": null
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