Merge pull request #1834 from oesteban/fix/do-not-run-aroma-plots

FIX: Skip plotting step of  ICA-AROMA

Author: oesteban

Dockerfile

@@ -108,11 +108,11 @@ RUN npm install -g [email protected]
 
 # Installing and setting up ICA_AROMA
 RUN mkdir -p /opt/ICA-AROMA && \
-  curl -sSL "https://github.com/maartenmennes/ICA-AROMA/archive/v0.4.4-beta.tar.gz" \
+  curl -sSL "https://github.com/oesteban/ICA-AROMA/archive/v0.4.5.tar.gz" \
   | tar -xzC /opt/ICA-AROMA --strip-components 1 && \
   chmod +x /opt/ICA-AROMA/ICA_AROMA.py
 ENV PATH="/opt/ICA-AROMA:$PATH" \
-    AROMA_VERSION="0.4.4-beta"
+    AROMA_VERSION="0.4.5"
 
 # Installing and setting up miniconda
 RUN curl -sSLO https://repo.continuum.io/miniconda/Miniconda3-4.5.11-Linux-x86_64.sh && \

fmriprep/workflows/bold/confounds.py

@@ -680,8 +680,8 @@ def _getusans_func(image, thresh):
 
     # ica_aroma node
     ica_aroma = pe.Node(ICA_AROMARPT(
-        denoise_type='nonaggr', generate_report=True, TR=metadata['RepetitionTime']),
-        name='ica_aroma')
+        denoise_type='nonaggr', generate_report=True, TR=metadata['RepetitionTime'],
+        args='-np'), name='ica_aroma')
 
     add_non_steady_state = pe.Node(niu.Function(function=_add_volumes,
                                                 output_names=['bold_add']),