search

JDACS4C-IMPROVE / Singularity

Singularity definitions that can be extended to support execution of community models.
MIT License
3 stars 5 forks source link

Test NIHGCN #47

Closed wilke closed 11 months ago

wilke commented 1 year ago

Command: Status: Failed

Depends on:

Output:

(GraphDRP) wilke@lambda7:~/Singularity$ less tests/NIHGCN.sif.log
CMD = python /usr/local/NIHGCN/nihgcn_baseline_pytorch.py
/candle_data_dir/NIHGCN/Data
/usr/local/bin/train.sh: line 69: ./candle_glue.sh: No such file or directory
using original data placed in /candle_data_dir/NIHGCN/Data
using CUDA_VISIBLE_DEVICES 4
using CANDLE_DATA_DIR /candle_data_dir
using CANDLE_CONFIG
...
    self._make_engine(self.engine)
  File "/opt/conda/lib/python3.7/site-packages/pandas/io/parsers.py", line 1135, in _make_engine
    self._engine = CParserWrapper(self.f, **self.options)
  File "/opt/conda/lib/python3.7/site-packages/pandas/io/parsers.py", line 1917, in __init__
    self._reader = parsers.TextReader(src, **kwds)
  File "pandas/_libs/parsers.pyx", line 382, in pandas._libs.parsers.TextReader.__cinit__
  File "pandas/_libs/parsers.pyx", line 689, in pandas._libs.parsers.TextReader._setup_parser_source
FileNotFoundError: [Errno 2] File b'/candle_data_dir/NIHGCN/Data/cell_drug_binary.csv' does not exist: b'/candle_data_dir/NIHGCN/Data/cell_drug_binary.csv'
wilke commented 11 months ago

Closing - integration and testing will resume from scratch for next release