Question: multiple paired end-reads in qiime1
0
gravatar for codea
3 months ago by
codea0
codea0 wrote:

I am in qiime1, trying to get some sequence pre processing done with my 16S data. I have both the forward (R1) and (R2) sequences running with the following :

multiple_join_paired_ends.py

using this website as a guide

i entered the following into qiime1:

multiple_join_paired_ends.py -i u -o p

and got this error:

(qiime1) codea@lsp-bioinfo03:~/r_drive$ multiple_join_paired_ends.py -i u -o pTraceback (most recent call last):
  File "/home/codea/miniconda2/envs/qiime1/bin/multiple_join_paired_ends.py", line 4, in <module>
    __import__('pkg_resources').run_script('qiime==1.9.1', 'multiple_join_paired_ends.py')
  File "/home/codea/miniconda2/envs/qiime1/lib/python2.7/site-packages/pkg_resources/__init__.py", line 657, in run_script
    self.require(requires)[0].run_script(script_name, ns)
  File "/home/codea/miniconda2/envs/qiime1/lib/python2.7/site-packages/pkg_resources/__init__.py", line 1437, in run_script
    exec(code, namespace, namespace)
  File "/home/codea/miniconda2/envs/qiime1/lib/python2.7/site-packages/qiime-1.9.1-py2.7.egg-info/scripts/multiple_join_paired_ends.py", line 201, in <module>
    main()
  File "/home/codea/miniconda2/envs/qiime1/lib/python2.7/site-packages/qiime-1.9.1-py2.7.egg-info/scripts/multiple_join_paired_ends.py", line 193, in main
    qiime_config=qiime_config)
  File "/home/codea/miniconda2/envs/qiime1/lib/python2.7/site-packages/qiime/workflow/util.py", line 46, in __init__
    self.write('QIIME version: %s\n\n' % get_qiime_library_version())
  File "/home/codea/miniconda2/envs/qiime1/lib/python2.7/site-packages/qiime/workflow/util.py", line 57, in write
    self._f.flush()
IOError: [Errno 95] Operation not supported
(qiime1) codea@lsp-bioinfo03:~/r_drive$

can anyone help me find out what this error is? I have reinstalled qiime today and still get the same result. I am following the instructions of the website as mentioned above, and have undergone all the file name conversions it asks for.

any help is more than appreciated.

Thanks.

ADD COMMENTlink modified 3 months ago by Vijay Lakhujani3.2k • written 3 months ago by codea0

Hello codea,

Please use the formatting bar (especially the code option) to present your post better. I've done it for you this time.
code_formatting

Thank you!

ADD REPLYlink written 3 months ago by Vijay Lakhujani3.2k
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