re-upload :/

willtack · Aug 28, 2019 · 5e961fa · 5e961fa
1 parent 82d9d48
commit 5e961fa
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Showing 10 changed files with 26 additions and 25 deletions.
diff --git a/.dockerignore b/.dockerignore
@@ -5,3 +5,4 @@ venv
 .idea
 .gitignore
 readme.md
+.git
diff --git a/Dockerfile b/Dockerfile
diff --git a/create_archive_fw_heudiconv.py b/create_archive_fw_heudiconv.py
diff --git a/docker-env.sh b/docker-env.sh
@@ -0,0 +1,4 @@
+export HOME="/root"
+export FLYWHEEL="/flywheel/v0"
+export PATH="/opt/miniconda-latest/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin"
+export CONDA_DIR="/opt/miniconda-latest"
diff --git a/manifest.json b/manifest.json
@@ -1,21 +1,25 @@
 {
-	"name": "presurgical_report",
-	"label": "Presurgical Report Generator",
+	"name": "y",
+	"label": "y",
 	"description": "Generates a report from an fmri scan of an epilepsy patient",
+	"version": "0",
+	"inputs": {
+		"fmriprep_dir": {
+			"base": "file",
+			"description": "Full path to directory containing fmriprep results"
+		}
+	},
+	"config": {},
+	"command": "./report.py",
 	"author": "Will Tackett",
-	"maintainer": "Will Tackett <william.tackett@pennmedicine.upenn.edu>",
+	"maintainer": "Will Tackett",
+	"license": "BSD-3-Clause",
 	"source": "none",
 	"url": "none",
-	"version": "3.1.1",
-	"license": "BSD-3-Clause",
-	"inputs": {
-		"fmriprep_dir": {
-			"description": "Full path to directory containing fmriprep results",
-			"base": "file"
-		},
-		"config": {},
-		"command": "./report.py",
-		"author": "Will Tackett",
-		"maintainer": "Will Tackett"
+	"custom": {
+		"gear-builder": {
+			"category": "analysis",
+			"image": "report"
+		}
 	}
-}
+}
diff --git a/neurodebian.gpg b/neurodebian.gpg
diff --git a/readme.md b/readme.md
diff --git a/report.py b/report.py
diff --git a/requirements.txt b/requirements.txt
diff --git a/run.sh b/run.sh
@@ -13,7 +13,7 @@ mkdir -p ${OUTPUT_DIR}
 CONTAINER='[flywheel/presurgicalreport]'
 #cp ${FLYWHEEL_BASE}/fmriprep_dir ${INPUT_DIR}/bids_dataset/derivatives/fmriprep/fmriprep_dir
 
-
+echo "test"
 # CREATE A BIDS FORMATTED DIRECTORY
 #   Use fw-heudiconv to accomplish this task
 /opt/miniconda-latest/bin/python3 ${FLYWHEEL_BASE}/create_archive_fw_heudiconv.py
@@ -34,4 +34,4 @@ fi
 # Show the contents of the BIDS directory
 ls -R ${BIDS_DIR}
 
-python report.py /flywheel/v0/bids_dataset /flywheel/v0/bids_dataset/derivatives/fmriprep/ /flywheel/v0/outputs
+/opt/miniconda-latest/bin/python3 report.py /flywheel/v0/bids_dataset /flywheel/v0/bids_dataset/derivatives/fmriprep/ /flywheel/v0/outputs