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Use NXF_HOME env var for nextflow home directory, if set #800

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merged 2 commits into from
Nov 27, 2020
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Use NXF_HOME env var for nextflow home directory, if set #800

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Use NXF_HOME env var for nextflow home directory, if set
ewels Nov 26, 2020
b83ac5d
Too many programming languages
ewels Nov 26, 2020
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2 changes: 2 additions & 0 deletions CHANGELOG.md
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Original file line number Diff line number Diff line change
Expand Up @@ -4,6 +4,8 @@

### Tools helper code

* Respect `$NXF_HOME` when looking for pipelines with `nf-core list` [[#798](https://github.com/nf-core/tools/issues/798)]

### Template

### Linting
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4 changes: 4 additions & 0 deletions nf_core/list.py
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Expand Up @@ -128,6 +128,8 @@ def get_local_nf_workflows(self):
# Try to guess the local cache directory (much faster than calling nextflow)
if len(os.environ.get("NXF_ASSETS", "")) > 0:
nextflow_wfdir = os.environ.get("NXF_ASSETS")
elif len(os.environ.get("NXF_HOME", "")) > 0:
nextflow_wfdir = os.path.join(os.environ.get("NXF_HOME"), "assets")
else:
nextflow_wfdir = os.path.join(os.getenv("HOME"), ".nextflow", "assets")
if os.path.isdir(nextflow_wfdir):
Expand Down Expand Up @@ -348,6 +350,8 @@ def get_local_nf_workflow_details(self):
# Try to guess the local cache directory
if len(os.environ.get("NXF_ASSETS", "")) > 0:
nf_wfdir = os.path.join(os.environ.get("NXF_ASSETS"), self.full_name)
elif len(os.environ.get("NXF_HOME", "")) > 0:
nf_wfdir = os.path.join(os.environ.get("NXF_HOME"), "assets")
else:
nf_wfdir = os.path.join(os.getenv("HOME"), ".nextflow", "assets", self.full_name)
if os.path.isdir(nf_wfdir):
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7 changes: 5 additions & 2 deletions nf_core/utils.py
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Expand Up @@ -68,9 +68,12 @@ def fetch_wf_config(wf_path):
cache_basedir = None
cache_path = None

# Nextflow home directory - use env var if set, or default to ~/.nextflow
nxf_home = os.environ.get("NXF_HOME", os.path.join(os.getenv("HOME"), ".nextflow"))

# Build a cache directory if we can
if os.path.isdir(os.path.join(os.getenv("HOME"), ".nextflow")):
cache_basedir = os.path.join(os.getenv("HOME"), ".nextflow", "nf-core")
if os.path.isdir(nxf_home):
cache_basedir = os.path.join(nxf_home, "nf-core")
if not os.path.isdir(cache_basedir):
os.mkdir(cache_basedir)

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