nuin nuin

## CouchDB_Python.md

      
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                nuin
                / CouchDB_Python.md
            
            
              Created
              January 22, 2023 02:13
                — forked from marians/CouchDB_Python.md
            
              
                The missing Python couchdb tutorial
              
          
    This is an unofficial manual for the couchdb Python module I wish I had had.
Installation

pip install couchdb

Importing the module


## pre-push.sh
#!/bin/bash

# @link https://gist.github.com/mattscilipoti/8424018
#
# Called by "git push" after it has checked the remote status,
# but before anything has been pushed.
#
# If this script exits with a non-zero status nothing will be pushed.
#
# Steps to install, from the root directory of your repo...

## 00_Makefile_LaTeX_README.md

      
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                nuin
                / 00_Makefile_LaTeX_README.md
            
            
              Created
              January 29, 2022 02:40
                — forked from tueda/00_Makefile_LaTeX_README.md
            
              
                Makefile for LaTeX documents. #make #latex
              
          
    This project is superceded by makefile4latex.
Makefile for LaTeX

This is a GNU Makefile for typesetting LaTeX documents. Expected to work with
TeXLive on Linux (and similar systems, e.g., on Cygwin). Just download
Makefile and put it in a directory that contains your LaTeX files. Running
make will generate PDF files for you:


## pocketdedupe.py
#!/usr/bin/env python

from pocket import Pocket
import webbrowser, sys

# Get consumer key from cmd line
consumer_key = sys.argv[1]

request_token = Pocket.get_request_token(
    consumer_key=consumer_key,

## ssh_client.py
#!/usr/bin/env python

import paramiko

hostname = 'localhost'
port = 22
username = 'foo'
password = 'xxxYYYxxx'

if __name__ == "__main__":

## useful_pandas_snippets.py
#List unique values in a DataFrame column
pd.unique(df.column_name.ravel())

#Convert Series datatype to numeric, getting rid of any non-numeric values
df['col'] = df['col'].astype(str).convert_objects(convert_numeric=True)

#Grab DataFrame rows where column has certain values
valuelist = ['value1', 'value2', 'value3']
df = df[df.column.isin(value_list)]

## get_info.py
#Paulo Nuin March 2013
#script that gets the Uniprot accession from a list of gene names

import rethinkdb as r
import sys


gene_table = open(sys.argv[1]).read().splitlines()


## uniprot_db.py
#Paulo Nuin March 2013
#script that extracts gene information from uniprot and saves into a Rethinkdb database
#database is created if needed
#table proteins:
#   name (gene name)
#   synonyms
#   organism
#   uniprot_id
#   sequence (protein)
#   ensembl ids (gene, transcript, protein)

## gist:5201776
#Paulo Nuin March 2013
#script that extracts gene information from uniprot and saves into a sqlite3 database
#database is created if needed
#table proteins:
#   name (gene name)
#   synonyms
#   organism
#   uniprot_id
#   sequence (protein)
#   ensembl ids (gene, transcript, protein)

## matplotlibrc
### MATPLOTLIBRC FORMAT

# This is a sample matplotlib configuration file - you can find a copy
# of it on your system in
# site-packages/matplotlib/mpl-data/matplotlibrc.  If you edit it
# there, please note that it will be overridden in your next install.
# If you want to keep a permanent local copy that will not be
# over-written, place it in HOME/.matplotlib/matplotlibrc (unix/linux
# like systems) and C:\Documents and Settings\yourname\.matplotlib
# (win32 systems).
	#!/bin/bash

	# @link https://gist.github.com/mattscilipoti/8424018
	#
	# Called by "git push" after it has checked the remote status,
	# but before anything has been pushed.
	#
	# If this script exits with a non-zero status nothing will be pushed.
	#
	# Steps to install, from the root directory of your repo...
	#!/usr/bin/env python

	from pocket import Pocket
	import webbrowser, sys

	# Get consumer key from cmd line
	consumer_key = sys.argv[1]

	request_token = Pocket.get_request_token(
	consumer_key=consumer_key,
	#!/usr/bin/env python

	import paramiko

	hostname = 'localhost'
	port = 22
	username = 'foo'
	password = 'xxxYYYxxx'

	if __name__ == "__main__":
	#List unique values in a DataFrame column
	pd.unique(df.column_name.ravel())

	#Convert Series datatype to numeric, getting rid of any non-numeric values
	df['col'] = df['col'].astype(str).convert_objects(convert_numeric=True)

	#Grab DataFrame rows where column has certain values
	valuelist = ['value1', 'value2', 'value3']
	df = df[df.column.isin(value_list)]
	#Paulo Nuin March 2013
	#script that gets the Uniprot accession from a list of gene names

	import rethinkdb as r
	import sys


	gene_table = open(sys.argv[1]).read().splitlines()
	#Paulo Nuin March 2013
	#script that extracts gene information from uniprot and saves into a Rethinkdb database
	#database is created if needed
	#table proteins:
	# name (gene name)
	# synonyms
	# organism
	# uniprot_id
	# sequence (protein)
	# ensembl ids (gene, transcript, protein)
	### MATPLOTLIBRC FORMAT

	# This is a sample matplotlib configuration file - you can find a copy
	# of it on your system in
	# site-packages/matplotlib/mpl-data/matplotlibrc. If you edit it
	# there, please note that it will be overridden in your next install.
	# If you want to keep a permanent local copy that will not be
	# over-written, place it in HOME/.matplotlib/matplotlibrc (unix/linux
	# like systems) and C:\Documents and Settings\yourname\.matplotlib
	# (win32 systems).