junifer 0.0.5__py3-none-any.whl → 0.0.5.dev24__py3-none-any.whl

junifer-0.0.5.dev24.dist-info/RECORD

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+junifer-0.0.5.dev24.dist-info/AUTHORS.rst,sha256=rmULKpchpSol4ExWFdm-qu4fkpSZPYqIESVJBZtGb6E,163
+junifer-0.0.5.dev24.dist-info/LICENSE.md,sha256=MqCnOBu8uXsEOzRZWh9EBVfVz-kE9NkXcLCrtGXo2yU,34354
+junifer-0.0.5.dev24.dist-info/METADATA,sha256=4mXZgmmbkudTvJi7H_OewbZdheKHRZIXLDEjzdfHfkE,8234
+junifer-0.0.5.dev24.dist-info/WHEEL,sha256=GJ7t_kWBFywbagK5eo9IoUwLW6oyOeTKmQ-9iHFVNxQ,92
+junifer-0.0.5.dev24.dist-info/entry_points.txt,sha256=DxFvKq0pOqRunAK0FxwJcoDfV1-dZvsFDpD5HRqSDhw,48
+junifer-0.0.5.dev24.dist-info/top_level.txt,sha256=4bAq1R2QFQ4b3hohjys2JBvxrl0GKk5LNFzYvz9VGcA,8
+junifer-0.0.5.dev24.dist-info/RECORD,,

{junifer-0.0.5.dist-info → junifer-0.0.5.dev24.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (71.1.0)
+Generator: bdist_wheel (0.43.0)
 Root-Is-Purelib: true
 Tag: py3-none-any
 

junifer/api/res/freesurfer/mri_binarize

@@ -1,3 +0,0 @@
-#!/bin/bash
-
-run_freesurfer_docker.sh mri_binarize "$@"

junifer/api/res/freesurfer/mri_mc

@@ -1,3 +0,0 @@
-#!/bin/bash
-
-run_freesurfer_docker.sh mri_mc "$@"

junifer/api/res/freesurfer/mri_pretess

@@ -1,3 +0,0 @@
-#!/bin/bash
-
-run_freesurfer_docker.sh mri_pretess "$@"

junifer/api/res/freesurfer/mris_convert

@@ -1,3 +0,0 @@
-#!/bin/bash
-
-run_freesurfer_docker.sh mris_convert "$@"

junifer/api/res/freesurfer/run_freesurfer_docker.sh

@@ -1,61 +0,0 @@
-#!/bin/bash
-
-corrected_args=()
-docker_args=()
-mounts=0
-
-FS_LICENSE="${FS_LICENSE:=$HOME/freesurfer_license.txt}"
-
-if [ -f "${FS_LICENSE}" ]; then
-    >&2 echo "Using freesurfer license from ${FS_LICENSE}"
-else
-    >&2 echo "Freesurfer license not found at ${FS_LICENSE}. You can either set FS_LICENSE to the path of the license file or place the license file at
-${FS_LICENSE}"
-    exit 1
-fi
-
-# Map the license path to the container by binding
-license_path=$(realpath "${FS_LICENSE}")
-license_path_fname=$(basename "${FS_LICENSE}")
-host_dir=$(dirname "${license_path}")
-((mounts+=1))
-container_dir="/data/mount_${mounts}"
-docker_args+=("-v ${host_dir}:${container_dir}")
-export DOCKERENV_FS_LICENSE=${container_dir}/${license_path_fname}
-
-for var in "$@"
-do
-if [ -d "${var}" ]; then
-        echo "$var is a directory" >&2
-        var=$(realpath "${var}")
-        host_dir=$(dirname "${var}")
-        ((mounts+=1))
-        container_dir="/data/mount_${mounts}"
-        docker_args+=("-v ${host_dir}:${container_dir}")
-        var=${container_dir}
-    elif [ -f "${var}" ] || [[ "${var}" == /* ]]; then
-        if [ -f "${var}" ]; then
-            echo "$var is a file" >&2
-            var=$(realpath "${var}")
-        else
-            echo "$var is a prefix" >&2
-        fi
-        fname=$(basename "${var}")
-        host_dir=$(dirname "${var}")
-        ((mounts+=1))
-        container_dir="/data/mount_${mounts}"
-        docker_args+=("-v ${host_dir}:${container_dir}")
-        var=${container_dir}/${fname}
-    fi
-    corrected_args+=("${var}")
-done
-
-echo "Docker args: ${docker_args[*]}" >&2
-echo "Corrected args for FreeSurfer: ${corrected_args[*]}" >&2
-
-cwd=$(pwd)
-cmd="docker run --rm ${docker_args[*]} -v ${cwd}:${cwd} -w ${cwd} freesurfer/freesurfer ${corrected_args[*]}"
-echo "Running command: ${cmd}" >&2
-${cmd}
-
-unset DOCKERENV_FS_LICENSE