尝试在命令行上执行AMR预测时,收到以下错误消息。

mykrobe predict tb_sample_id tb -1 /home/TB/demo_input_file_for_M.tuberculosis_app.fastq

选择的物种是结核病(tb),而样本数据文件是从mykrobe网站(https://github.com/iqbal-lab/Mykrobe-predictor/releases/download/v0.1.1-beta/demo_input_file_for_M.tuberculosis_app.fastq.gz)下载的。
我收到的错误信息…
Traceback (most recent call last):
  File "/usr/local/bin/mykrobe", line 9, in <module>
    load_entry_point('mykrobe==0.4.2', 'console_scripts', 'mykrobe')()
  File "/usr/local/lib/python2.7/site-packages/mykrobe/mykrobe_predictor.py", line 99, in main
    args.func(parser, args)
  File "/usr/local/lib/python2.7/site-packages/mykrobe/mykrobe_predictor.py", line 32, in run_subtool
    run(parser, args)
  File "/usr/local/lib/python2.7/site-packages/mykrobe/cmds/amr.py", line 127, in run
    cp.run()
  File "/usr/local/lib/python2.7/site-packages/mykatlas/typing/typer/genotyper.py", line 73, in run
    self._run_cortex()
  File "/usr/local/lib/python2.7/site-packages/mykatlas/typing/typer/genotyper.py", line 90, in _run_cortex
    self.mc_cortex_runner.run()
  File "/usr/local/lib/python2.7/site-packages/mykatlas/cortex/mccortex.py", line 161, in run
    self._run_cortex()
  File "/usr/local/lib/python2.7/site-packages/mykatlas/cortex/mccortex.py", line 173, in _run_cortex
    self._build_panel_binary_if_required()
  File "/usr/local/lib/python2.7/site-packages/mykatlas/cortex/mccortex.py", line 190, in _build_panel_binary_if_required
    subprocess.check_output(cmd)
  File "/usr/local/lib/python2.7/subprocess.py", line 566, in check_output
    process = Popen(stdout=PIPE, *popenargs, **kwargs)
  File "/usr/local/lib/python2.7/subprocess.py", line 710, in __init__
    errread, errwrite)
  File "/usr/local/lib/python2.7/subprocess.py", line 1335, in _execute_child
    raise child_exception
OSError: [Errno 2] No such file or directory

如有任何建议,将不胜感激。

最佳答案

我是MyKrobe Predictor的作者之一。正如上面有人所评论的,也许问这个问题的正确地方是我们mykrobe predictor存储库中的github问题:
https://github.com/iqbal-lab/Mykrobe-predictor/issues
请随意提出这个问题。

关于python - Mykrobe预测器AMR预测不起作用,我们在Stack Overflow上找到一个类似的问题:https://stackoverflow.com/questions/39793340/

10-08 21:10