Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

FIX: Skip plotting step of ICA-AROMA #1834

Merged
merged 1 commit into from
Oct 17, 2019
Merged

FIX: Skip plotting step of ICA-AROMA #1834

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
4 changes: 2 additions & 2 deletions Dockerfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -108,11 +108,11 @@ RUN npm install -g bids-validator@1.2.3

# 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 && \
Expand Down
4 changes: 2 additions & 2 deletions fmriprep/workflows/bold/confounds.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -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']),
Expand Down