multiple paired end-reads in qiime1

Question: multiple paired end-reads in qiime1

3 months ago by

codea • 0

codea • 0 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.

errno95 ioerror multiplepairedends qiime1 • 118 views

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modified 3 months ago by Vijay Lakhujani ♦ 3.2k • written 3 months ago by codea • 0

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 REPLY • link written 3 months ago by Vijay Lakhujani ♦ 3.2k

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