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Search found 14 results on 1 pages for 'user343934'.

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• Sphinx - Python modules, classes and functions documentation

  - by user343934

  Hi everyone, I am trying to document my small project through sphinx which im recently trying to get familiar with. I read some tutorials and sphinx documentation but couldn't make it. Setup and configurations are ok! just have problems in using sphinx in a technical way. My table of content should look like this --- Overview .....Contents…

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• Subprocess fails to catch the standard output

  - by user343934

  I am trying to generate tree with fasta file input and Alignment with MuscleCommandline import sys,os, subprocess from Bio import AlignIO from Bio.Align.Applications import MuscleCommandline cline = MuscleCommandline(input="c:\Python26\opuntia.fasta") child= subprocess.Popen(str(cline), stdout = subprocess.PIPE, …

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• 50 sequences in one line

  - by user343934

  I have alignment file and long record in it. Suppose while displaying to an end user i want to show Sequence ID and 50 sequences in each line and continue further till the end of file. Can anyone suggest me algorithm or example code in python. Thanks in advance

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• 50 sequences in one line

  - by user343934

  I have Muttiple sequence alignment (clustal) file and i want to read this file and arrange sequences in a such a way that in looks more clear and precise in order. I am doing this from biopython using AlignIO object. My codes like this alignment = AlignIO.read("opuntia.aln", "clustal") print "Number of rows: %i" % len(align) for…

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• importing class and its function from another file

  - by user343934

  Hi everyone, I am having little problem with importing classes in python. My work flow goes like this index.py class Template: def header(): def body(): def form(): def footer(): display.py I want to call function header(), body() and footer () in my display.py page. Will anyone make me clear about this…

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• Can anyone tell me why these lines are not working?

  - by user343934

  I am trying to generate tree with fasta file input and Alignment with MuscleCommandline import sys,os, subprocess from Bio import AlignIO from Bio.Align.Applications import MuscleCommandline cline = MuscleCommandline(input="c:\Python26\opuntia.fasta") child= subprocess.Popen(str(cline), stdout = subprocess.PIPE, …

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• File management

  - by user343934

  I am working on python and biopython right now. I have a file upload form and whatever file is uploaded suppose(abc.fasta) then i want to pass same name in execute (abc.fasta) function parameter and display function parameter (abc.aln). Right now i am changing file name manually, but i want to have it automatically. Workflow goes like this. …

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• changing file extension in python

  - by user343934

  Suppose from index.py, i have post file .fasta to display file. I want to change .fasta file extension to **.aln in display file. How can i do it? I am working right now on python cgi. Thanks for listening

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• saving file name from html form input

  - by user343934

  I am working on python and biopython right now. I have a file upload form and whatever file is uploaded suppose(abc.fasta) then i want to pass same name in execute (abc.fasta) function parameter and display function parameter (abc.aln). Workflow goes like this. ----If submit is not true then display only header and form part --- if submit…

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• Reading lines including space

  - by user343934

  I want to read file including spaces in each lines I am using python and output embedded in html File to be read - http://pastebin.com/EaeKsyvg Thanks

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• Time Calculation in Python

  - by user343934

  Hi everyone, I have two python cgi pages (index, display), what i need to do is calculate time frame between the execution. Work flow: Index.py (submit) After submit it redirect to display.py page display.py page has got class with execute(),display() &init_main() functions In init_main() i have created class object which access to…

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• Python modules, classs, functions documentation through Sphinx

  - by user343934

  Hi everyone, I am trying to document my small project through sphinx which im recently trying to get familiar with. I read some tutorials and sphinx documentation but couldn't make it. Setup and configurations are ok! just have problems in using sphinx in a technical way. My table of content should look like this --- Overview …

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• Create unique file name and fetching it to commandline argument

  - by user343934

  Hi everyone, I am working on python right now and i am little bit stuck in performing some tricks. I have web form with two options- File upload and textarea, i can easily pass file name with file upload options but have problem when it's textarea. Because when i use textarea then first i have to save values passed from textarea to…

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• importing class and its function from another file [Python]

  - by user343934

  Hi everyone, I am having little bit problem in importing classes in python. My work flow goes like this -index.py ---class template: ------def header(): ------def body(): ------def footer(): -display.py I want to call function header(), body() and footer () in my display.py page. Will anyone make me…

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