Error in building group config file by "cpac group feat load_preset"

[Xiaochen TANG]

Hi everyone,

After preprocessed by “cpac run”, I am trying to generate model presets in different way but always get errors. Following the online user guide, the output of “cpac group feat load_preset single_grp_avg --help” is:
Usage: run.py group feat load_preset single_grp_avg [OPTIONS] PIPELINE_DIR
Z_THRESH P_THRESH
MODEL_NAME
So, the command “cpac group feat load_preset single_grp_avg /home/user/Test/cpac/output 2.3 0.05 sgl_sub4” was executed, but it failed to access the “cpac_outputs.csv” file. Moreover, the command “cpac group feat build_models /home/user/Applications/cpac/group_config_sharp.yml” had the same error. The detailed error is as follows:

raceback (most recent call last): File "/code/CPAC/utils/create_fsl_flame_preset.py", line 998, in run keys = pd.read_csv(keys_csv) File "/usr/local/miniconda/lib/python3.7/site-packages/pandas/io/parsers.py", line 678, in parser_f return _read(filepath_or_buffer, kwds) File "/usr/local/miniconda/lib/python3.7/site-packages/pandas/io/parsers.py", line 440, in _read parser = TextFileReader(filepath_or_buffer, **kwds) File "/usr/local/miniconda/lib/python3.7/site-packages/pandas/io/parsers.py", line 787, in __init__ self._make_engine(self.engine) File "/usr/local/miniconda/lib/python3.7/site-packages/pandas/io/parsers.py", line 1014, in _make_engine self._engine = CParserWrapper(self.f, **self.options) File "/usr/local/miniconda/lib/python3.7/site-packages/pandas/io/parsers.py", line 1708, in __init__ self._reader = parsers.TextReader(src, **kwds) File "pandas/_libs/parsers.pyx", line 384, in pandas._libs.parsers.TextReader.__cinit__ File "pandas/_libs/parsers.pyx", line 695, in pandas._libs.parsers.TextReader._setup_parser_source FileNotFoundError: File b'/code/CPAC/resources/cpac_outputs.csv' does not exist During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/code/run.py", line 762, in <module> run_main() File "/code/run.py", line 334, in run_main main.main(args=sys.argv[sys.argv.index('--') + 1:]) File "/usr/local/miniconda/lib/python3.7/site-packages/click/core.py", line 697, in main rv = self.invoke(ctx) File "/usr/local/miniconda/lib/python3.7/site-packages/click/core.py", line 1066, in invoke return _process_result(sub_ctx.command.invoke(sub_ctx)) File "/usr/local/miniconda/lib/python3.7/site-packages/click/core.py", line 1066, in invoke return _process_result(sub_ctx.command.invoke(sub_ctx)) File "/usr/local/miniconda/lib/python3.7/site-packages/click/core.py", line 1066, in invoke return _process_result(sub_ctx.command.invoke(sub_ctx)) [Previous line repeated 1 more time] File "/usr/local/miniconda/lib/python3.7/site-packages/click/core.py", line 895, in invoke return ctx.invoke(self.callback, **ctx.params) File "/usr/local/miniconda/lib/python3.7/site-packages/click/core.py", line 535, in invoke return callback(*args, **kwargs) File "/code/CPAC/__main__.py", line 176, in single_grp_avg model_name=model_name) File "/code/CPAC/utils/create_fsl_flame_preset.py", line 1002, in run raise Exception(err) Exception: [!] Could not access or read the cpac_outputs.csv resource file: /code/CPAC/resources/cpac_outputs.csv Error details File b'/code/CPAC/resources/cpac_outputs.csv' does not exist

Thanks a lot,
Xiaochen

[sgia...@gmail.com]

Hello Xiaochen,

The CPAC group model builder is currently considered deprecated - we've moved onto BIDS-Derivatives format for the individual-level preprocessing outputs, and the group runner's data parser is no longer compatible with this.

We are currently planning our next phases regarding the group builder codebase. In the meantime, what type of models are you trying to run using FSL FEAT?

Best,

Steve