DEBUG: git tag

UPDATE: restrict default tasklist to structural and functional only

BIDS_aa.xml

@@ -7,7 +7,6 @@
             <numberofworkers>4</numberofworkers>
         </aaparallel-->
         <NIFTI4D>1</NIFTI4D>
-        <email>tibor.auer@rhul.ac.uk</email>
 
         <autoidentifystructural_choosefirst>1</autoidentifystructural_choosefirst>
     </options>
@@ -24,9 +23,6 @@
         <aamod_norm8>
             <vox>1</vox>
         </aamod_norm8>
-        <aamod_diffusion_bet>
-            <bet_f_parameter>0.4</bet_f_parameter>
-        </aamod_diffusion_bet>
         <aamod_slicetiming>
             <autodetectSO>1</autodetectSO>
             <refslice>16</refslice>

BIDS_tasklist.xml

@@ -1,5 +1,4 @@
 <?xml version="1.0" encoding="utf-8"?>
-<!-- This is a tasklist to process BIDS multimodal NIfTI dataset ds114 (https://github.com/INCF/BIDS-examples/tree/master/ds114) -->
 <aap>
     <tasklist>
         <initialisation>
@@ -12,11 +11,9 @@
         <main>
             <!-- Data -->
             <module><name>aamod_structuralfromnifti</name></module>
-            <module><name>aamod_diffusionfromnifti</name></module>
             <module><name>aamod_epifromnifti</name></module>
 
             <module><name>aamod_reorienttomiddle_structural</name></module>
-            <module><name>aamod_reorienttomiddle_diffusion</name></module>
             <module><name>aamod_reorienttomiddle_epi</name></module>
             <module><name>aamod_tsdiffana</name></module>
 
@@ -28,13 +25,6 @@
 
             <module><name>aamod_norm8</name></module>
 
-            <!-- Diffusion -->
-            <module><name>aamod_diffusion_extractnodif</name></module>
-            <module><name>aamod_diffusion_bet</name></module>
-            <module><name>aamod_diffusion_dtinlfit</name></module>
-            <module><name>aamod_diffusion_coreg_extended_2DTI</name></module>
-            <module><name>aamod_diffusion_norm_write_DTI</name></module>
-
             <!-- Functional -->
             <module><name>aamod_realign</name></module>
             <module><name>aamod_slicetiming</name></module>

circle.yml

@@ -16,15 +16,15 @@ dependencies:
     - if [[ ! -d ~/data/ds114_test1 ]]; then wget -c -O ${HOME}/Download/ds114_test1.tar "https://files.osf.io/v1/resources/9q7dv/providers/osfstorage/57e54a326c613b01d7d3ed90" && mkdir -p ${HOME}/data && tar xf ${HOME}/Download/ds114_test1.tar -C ${HOME}/data; fi
     - if [[ ! -d ~/data/ds114_test2 ]]; then wget -c -O ${HOME}/Download/ds114_test2.tar "https://files.osf.io/v1/resources/9q7dv/providers/osfstorage/57e549f9b83f6901d457d162" && mkdir -p ${HOME}/data && tar xf ${HOME}/Download/ds114_test2.tar -C ${HOME}/data; fi
     - if [[ -e ~/docker/image.tar ]]; then docker load -i ~/docker/image.tar; fi
-    - git describe --tags > version
+    - git describe --tags --always > version
     - docker build -t bids/${CIRCLE_PROJECT_REPONAME} . :
         timeout: 86400
     - mkdir -p ~/docker; docker save "bids/${CIRCLE_PROJECT_REPONAME}" > ~/docker/image.tar
     - mkdir -p ${HOME}/outputs
 
 test:
   override:
-    # Basic use case (default pipeline)
+    # Basic use case (default pipeline - structural and task-based functional only)
     # print version
     - docker run -ti --rm --read-only -v /tmp:/tmp -v /var/tmp:/var/tmp -v ${HOME}/data/ds114_test1:/bids_dataset bids/${CIRCLE_PROJECT_REPONAME,,} --version
     # participant level tests for single session dataset