Commit 68a8bf6

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enh: install datalad/dcm2niix on circle build

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Lines changed: 2 additions & 1 deletion

Original file line number	Diff line number	Diff line change
`@@ -68,10 +68,11 @@ function generate_base_dockerfile() {`
`68`	`68`	`--spm12 version=r7219 \`
`69`	`69`	`--env 'LD_LIBRARY_PATH=/lib/x86_64-linux-gnu:$LD_LIBRARY_PATH' \`
`70`	`70`	`--freesurfer version=6.0.0-min \`
	`71`	`+ --dcm2niix version=v1.0.20190902 \`
`71`	`72`	`--run 'echo "cHJpbnRmICJrcnp5c3p0b2YuZ29yZ29sZXdza2lAZ21haWwuY29tCjUxNzIKICpDdnVtdkVWM3pUZmcKRlM1Si8yYzFhZ2c0RQoiID4gL29wdC9mcmVlc3VyZmVyLTYuMC4wLW1pbi9saWNlbnNlLnR4dA==" \| base64 -d \| sh' \`
`72`	`73`	`--install afni ants apt-utils bzip2 convert3d file fsl-core \`
`73`	`74`	`fsl-mni152-templates fusefat g++ git graphviz make python ruby \`
`74`		`- unzip xvfb \`
	`75`	`+ unzip xvfb git-annex-standalone \`
`75`	`76`	`--add-to-entrypoint "source /etc/fsl/fsl.sh && source /etc/afni/afni.sh" \`
`76`	`77`	`--env ANTSPATH='/usr/lib/ants' \`
`77`	`78`	`PATH='/usr/lib/ants:$PATH' \`

Lines changed: 1 addition & 0 deletions

Original file line number	Diff line number	Diff line change
`@@ -182,6 +182,7 @@ def get_nipype_gitversion():`
`182`	`182`	`]`
`183`	`183`
`184`	`184`	`EXTRA_REQUIRES = {`
	`185`	`+ 'data': ['datalad'],`
`185`	`186`	`'doc': ['Sphinx>=1.4', 'numpydoc', 'matplotlib', 'pydotplus', 'pydot>=1.2.3'],`
`186`	`187`	`'duecredit': ['duecredit'],`
`187`	`188`	`'nipy': ['nitime', 'nilearn<0.5.0', 'dipy', 'nipy', 'matplotlib'],`

Lines changed: 1 addition & 1 deletion

Original file line number	Diff line number	Diff line change
`@@ -425,7 +425,7 @@ def _parse_stdout(self, stdout):`
`425`	`425`	`filenames = []`
`426`	`426`	`for line in stdout.split("\n"):`
`427`	`427`	`if line.startswith("Convert "): # output`
`428`		`- fname = str(re.search('\S+/\S+', line).group(0))`
	`428`	`+ fname = str(re.search(r'\S+/\S+', line).group(0))`
`429`	`429`	`filenames.append(os.path.abspath(fname))`
`430`	`430`	`return filenames`
`431`	`431`

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