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| author | Pjotr Prins | 2020-05-06 09:03:08 -0500 |
|---|---|---|
| committer | Pjotr Prins | 2020-05-06 09:03:08 -0500 |
| commit | 0031e778ee1ad8b934411da5082fcb3115646e67 (patch) | |
| tree | be17fb9aff6351e967a9210cd4c58a60ad55a382 /scripts/import_to_arvados.py | |
| parent | 7d7af6cde75d09da7a05cf5bc05ef2556c3aea92 (diff) | |
| parent | b6d846b5de6c67b28adab1fa520953115a1a1e30 (diff) | |
| download | bh20-seq-resource-0031e778ee1ad8b934411da5082fcb3115646e67.tar.gz bh20-seq-resource-0031e778ee1ad8b934411da5082fcb3115646e67.tar.lz bh20-seq-resource-0031e778ee1ad8b934411da5082fcb3115646e67.zip | |
Merge branch 'master' of github.com:arvados/bh20-seq-resource
Diffstat (limited to 'scripts/import_to_arvados.py')
| -rw-r--r-- | scripts/import_to_arvados.py | 14 |
1 files changed, 14 insertions, 0 deletions
diff --git a/scripts/import_to_arvados.py b/scripts/import_to_arvados.py new file mode 100644 index 0000000..78cd13d --- /dev/null +++ b/scripts/import_to_arvados.py @@ -0,0 +1,14 @@ +import os +import subprocess +import glob +import sys + +os.chdir(os.environ["TMPDIR"]) +os.symlink(sys.argv[2], "dict_ontology_standardization") +subprocess.run(sys.argv[1]) + +os.chdir("fasta_and_yaml") +fasta_files = glob.glob("*.fasta") + +for f in fasta_files: + subprocess.run(["bh20-seq-uploader", f, "%s.yaml" %f[:-6]]) |