Auto-generated commit for originally unversioned bundle

SCT commit: 40b327eca589bef73ae616309548babde405f964 SCT commit message: Merge pull request #1090 from neuropoly/jca_issue_411 Jca_issue_411 Former-commit-id: bda0234148ec4333128e5cdcf41d7229f371e297
spinalcordtoolbox · Jan 7, 2017 · 108cfc5 · 108cfc5
1 parent d31aeff
commit 108cfc5
Show file tree

Hide file tree

Showing 42 changed files with 10 additions and 4 deletions.
diff --git a/CHANGES.md b/CHANGES.md
@@ -1,8 +1,14 @@
 #PAM50 Template
 
+##2017-01-07 (JCA)
+- Fixed typo in atlas info_label.txt (issue #1100)
+
+##2017-01-01 (JCA)
+- Atlas now sums to one inside the cord (fixed issue #411)
+
 ##2016-11-28 (JCA)
 - added spinal levels using $SCT_DIR/dev/spinal_level/sct_extract_spinal_levels.py
-- Removed __MACOSX in archive using
+- Removed __MACOSX in archive and zip using
 ~~~
 zip -r 20161121_PAM50.zip PAM50/
 ~~~

diff --git a/atlas/PAM50_atlas_00.nii.gz b/atlas/PAM50_atlas_00.nii.gz
diff --git a/atlas/PAM50_atlas_01.nii.gz b/atlas/PAM50_atlas_01.nii.gz
diff --git a/atlas/PAM50_atlas_02.nii.gz b/atlas/PAM50_atlas_02.nii.gz
diff --git a/atlas/PAM50_atlas_03.nii.gz b/atlas/PAM50_atlas_03.nii.gz
diff --git a/atlas/PAM50_atlas_04.nii.gz b/atlas/PAM50_atlas_04.nii.gz
diff --git a/atlas/PAM50_atlas_05.nii.gz b/atlas/PAM50_atlas_05.nii.gz
diff --git a/atlas/PAM50_atlas_06.nii.gz b/atlas/PAM50_atlas_06.nii.gz
diff --git a/atlas/PAM50_atlas_07.nii.gz b/atlas/PAM50_atlas_07.nii.gz
diff --git a/atlas/PAM50_atlas_08.nii.gz b/atlas/PAM50_atlas_08.nii.gz
diff --git a/atlas/PAM50_atlas_09.nii.gz b/atlas/PAM50_atlas_09.nii.gz
diff --git a/atlas/PAM50_atlas_10.nii.gz b/atlas/PAM50_atlas_10.nii.gz
diff --git a/atlas/PAM50_atlas_11.nii.gz b/atlas/PAM50_atlas_11.nii.gz
diff --git a/atlas/PAM50_atlas_12.nii.gz b/atlas/PAM50_atlas_12.nii.gz
diff --git a/atlas/PAM50_atlas_13.nii.gz b/atlas/PAM50_atlas_13.nii.gz
diff --git a/atlas/PAM50_atlas_14.nii.gz b/atlas/PAM50_atlas_14.nii.gz
diff --git a/atlas/PAM50_atlas_15.nii.gz b/atlas/PAM50_atlas_15.nii.gz
diff --git a/atlas/PAM50_atlas_16.nii.gz b/atlas/PAM50_atlas_16.nii.gz
diff --git a/atlas/PAM50_atlas_17.nii.gz b/atlas/PAM50_atlas_17.nii.gz
diff --git a/atlas/PAM50_atlas_18.nii.gz b/atlas/PAM50_atlas_18.nii.gz
diff --git a/atlas/PAM50_atlas_19.nii.gz b/atlas/PAM50_atlas_19.nii.gz
diff --git a/atlas/PAM50_atlas_20.nii.gz b/atlas/PAM50_atlas_20.nii.gz
diff --git a/atlas/PAM50_atlas_21.nii.gz b/atlas/PAM50_atlas_21.nii.gz
diff --git a/atlas/PAM50_atlas_22.nii.gz b/atlas/PAM50_atlas_22.nii.gz
diff --git a/atlas/PAM50_atlas_23.nii.gz b/atlas/PAM50_atlas_23.nii.gz
diff --git a/atlas/PAM50_atlas_24.nii.gz b/atlas/PAM50_atlas_24.nii.gz
diff --git a/atlas/PAM50_atlas_25.nii.gz b/atlas/PAM50_atlas_25.nii.gz
diff --git a/atlas/PAM50_atlas_26.nii.gz b/atlas/PAM50_atlas_26.nii.gz
diff --git a/atlas/PAM50_atlas_27.nii.gz b/atlas/PAM50_atlas_27.nii.gz
diff --git a/atlas/PAM50_atlas_28.nii.gz b/atlas/PAM50_atlas_28.nii.gz
diff --git a/atlas/PAM50_atlas_29.nii.gz b/atlas/PAM50_atlas_29.nii.gz
diff --git a/atlas/PAM50_atlas_30.nii.gz b/atlas/PAM50_atlas_30.nii.gz
diff --git a/atlas/PAM50_atlas_31.nii.gz b/atlas/PAM50_atlas_31.nii.gz
diff --git a/atlas/PAM50_atlas_32.nii.gz b/atlas/PAM50_atlas_32.nii.gz
diff --git a/atlas/PAM50_atlas_33.nii.gz b/atlas/PAM50_atlas_33.nii.gz
diff --git a/atlas/PAM50_atlas_34.nii.gz b/atlas/PAM50_atlas_34.nii.gz
diff --git a/atlas/PAM50_atlas_35.nii.gz b/atlas/PAM50_atlas_35.nii.gz
diff --git a/atlas/PAM50_atlas_36.nii.gz b/atlas/PAM50_atlas_36.nii.gz
diff --git a/atlas/info_label.txt b/atlas/info_label.txt
@@ -46,9 +46,9 @@
 50, spinal cord, 0:35
 51, white matter, 0:29
 52, gray matter, 30:35
-52, dorsal columns, 0:3
-53, lateral funiculi, 4:13
-54, ventral funiculi, 14:29
+53, dorsal columns, 0:3
+54, lateral funiculi, 4:13
+55, ventral funiculi, 14:29
 
 # Clusters used for the first step of the MAP estimation (for advanced users only)
 # Keyword=MAPLabels (Please DO NOT change this line)

diff --git a/template/PAM50_cord.nii.gz b/template/PAM50_cord.nii.gz
diff --git a/template/PAM50_gm.nii.gz b/template/PAM50_gm.nii.gz
diff --git a/template/PAM50_wm.nii.gz b/template/PAM50_wm.nii.gz