From 7b8c393b337a4a56bfdf1d8f94c56b3a8e80efc9 Mon Sep 17 00:00:00 2001 From: Spiros Maggioros Date: Thu, 29 Aug 2024 09:23:30 +0300 Subject: [PATCH 1/2] Cache purge for workflows --- .github/workflows/macos_test_cases.yml | 1 + .github/workflows/ubuntu_test_cases.yml | 1 + 2 files changed, 2 insertions(+) diff --git a/.github/workflows/macos_test_cases.yml b/.github/workflows/macos_test_cases.yml index 37b9c17..e1578dc 100644 --- a/.github/workflows/macos_test_cases.yml +++ b/.github/workflows/macos_test_cases.yml @@ -20,6 +20,7 @@ jobs: miniconda-version: "latest" - name: Install dependencies run: | + python -m pip cache purge pip install -r requirements.txt - name: pipeline test for vTest1 using spare run: | diff --git a/.github/workflows/ubuntu_test_cases.yml b/.github/workflows/ubuntu_test_cases.yml index 8b4d868..d064bab 100644 --- a/.github/workflows/ubuntu_test_cases.yml +++ b/.github/workflows/ubuntu_test_cases.yml @@ -20,6 +20,7 @@ jobs: miniconda-version: "latest" - name: Install dependencies run: | + python -m pip cache purge pip install -r requirements.txt - name: pipeline test for vTest1 using spare run: | From b884d605bfbfc94b88599e15df70f528cc63fb71 Mon Sep 17 00:00:00 2001 From: Spiros Maggioros Date: Thu, 29 Aug 2024 09:39:06 +0300 Subject: [PATCH 2/2] Remove report --- README.md | 6 +- src/workflow/workflows/w_sMRI/report.html | 77322 -------------------- 2 files changed, 3 insertions(+), 77325 deletions(-) delete mode 100644 src/workflow/workflows/w_sMRI/report.html diff --git a/README.md b/README.md index 65dffa2..80eae67 100644 --- a/README.md +++ b/README.md @@ -32,9 +32,9 @@ NiChart is a comprehensive framework designed to revolutionize neuroimaging rese ## Example Usage -1. `python3 run.py --dir_input input folder --dir_output output_folder --studies 1 --version my_version --cores 4 --conda 0` # this will run the pipeline using 4 cores without initializing a new conda environment with an input folder containing 1 study -2. `python3 run.py --dir_input input folder --dir_output output_folder --studies 2 --version my_version --cores 2 --conda 1` # this will run the pipeline using 2 cores initializing a new conda environment with an input folder containing 2 studies -3. `python3 run.py --dir_input input folder --dir_output output_folder --studies 2 --version my_version --cores 2 --conda 1 --dry_run 1` # this will perform a dry run for the same parameters +1. `python3 run.py --dir_input input folder --dir_output output_folder --studies 1 --version my_version --cores 4 --conda 0` this will run the pipeline using 4 cores without initializing a new conda environment with an input folder containing 1 study +2. `python3 run.py --dir_input input folder --dir_output output_folder --studies 2 --version my_version --cores 2 --conda 1` this will run the pipeline using 2 cores initializing a new conda environment with an input folder containing 2 studies +3. `python3 run.py --dir_input input folder --dir_output output_folder --studies 2 --version my_version --cores 2 --conda 1 --dry_run 1` this will perform a dry run for the same parameters --- © 2024 CBICA. All Rights Reserved. diff --git a/src/workflow/workflows/w_sMRI/report.html b/src/workflow/workflows/w_sMRI/report.html deleted file mode 100644 index 7884965..0000000 --- a/src/workflow/workflows/w_sMRI/report.html +++ /dev/null @@ -1,77322 +0,0 @@ - - - - - - - - - - Snakemake Report - - - - - - - - - -
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