| #!/usr/bin/env python | |
| # To use: | |
| # python csv-to-ris-format.py csvfile.csv risoutput.txt | |
| # | |
| # Assumes you have removed the header row from the csv file, | |
| # columns are in the same order as the labels list, | |
| # and there are no other columns in the csv. | |
| import csv | |
| from sys import argv |
| #!/bin/bash | |
| # tika2text.sh - given a directory, recursively extract text frome files | |
| # Eric Lease Morgan <emorgan@nd.edu> | |
| # (c) University of Notre Dame, distributed under a GNU Public License | |
| # March 27, 2017 - a second cut; works with a directory | |
| Search PubMed for articles in the PMC Open Access Subset for which free full text (i.e. XML) is available: | |
| http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=pubmed&retmode=xml&term=pubmed+pmc+open+access%5Bfilter%5D+AND+free+full+text%5Bfilter%5D | |
| Find the PMCID for an article by PMID: | |
| http://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&db=pmc&retmode=xml&linkname=pubmed_pmc&id=24191168 | |
| Fetch full text article XML from PMC by PMCID: | |
| http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&id=3804407 | |
| A PMC article for which the full text XML is not available: |
Using Homebrew on OS X?
Want Apache Jena's command-line tools, including the incredibly useful sparql command, but can't be bothered endlessly messing with Jena's environment variables to get them to work?
Try the command below, which installs Jena via a formula made by my colleague Kevin Lyda:
brew install https://raw.github.com/lyda/homebrew/jena/Library/Formula/jena.rb
If it worked, you can now do:
| Thursday 6245 | |
| Wednesday 6109 | |
| Tuesday 4985 | |
| Friday 4700 | |
| Monday 3406 | |
| Sunday 348 | |
| Saturday 308 |
| # Inputs | |
| feature_names <- c("Feature 5", "Feature 4", "Feature 3", "Feature 2", "Feature 1") | |
| num_features <- length(feature_names) | |
| y <- array(c(10,4,1,0, 3,4,2,0, 1,2,8,1, 0,0,5,1, 1,2,5,3), dim=c(4,num_features)) | |
| # Calculate plot | |
| num_neg_ratings <- 0 | |
| num_pos_ratings <- 0 | |
| for(i in 1:num_features) { | |
| num_neg_ratings = max(num_neg_ratings, sum(y[1:2,i]), sum(y[3:4,i])) |
| @mixin span-icon | |
| float: left | |
| height: 9px | |
| line-height: 11px | |
| font-size: 13px | |
| font-weight: 800 | |
| margin-top: 2px | |
| margin-bottom: 1px | |
| margin-right: 4px | |
| padding-bottom: 4px |
| 1. Go to the app directory | |
| cd /Applications/Google\ Chrome.app/Contents/MacOS/ | |
| 2. Rename the app to app.orig | |
| mv Google\ Chrome Google\ Chrome.orig | |
| 3. Create a shell script with the original name that uses the args you want |
| (function() { | |
| // Change `silent` to true to invoke the promptless, self-closing | |
| // version of the bookmarklet. | |
| var silent = false; | |
| var url = location.href; | |
| var title = document.title; | |
| // Look for a single hAtom entry on the page, and iff one is found, extract | |
| // the entry-title in place of the document title: |