ContentMine / getpapers

Get metadata, fulltexts or fulltext URLs of papers matching a search query
MIT License
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Installing getpapers on Ubuntu distros #101

Closed alexmaina closed 8 years ago

alexmaina commented 8 years ago

I am trying to install getpapers on my ubuntu 14.04 box. However, when i run npm install --global getpapers i get the following errors

`alex@alex-Studio-1555:~$ npm install --global getpapers npm http GET https://registry.npmjs.org/getpapers npm http 304 https://registry.npmjs.org/getpapers npm ERR! Error: EACCES, mkdir '/usr/local/lib/node_modules' npm ERR! { [Error: EACCES, mkdir '/usr/local/lib/node_modules'] npm ERR! errno: 3, npm ERR! code: 'EACCES', npm ERR! path: '/usr/local/lib/node_modules', npm ERR! fstream_type: 'Directory', npm ERR! fstream_path: '/usr/local/lib/node_modules/getpapers', npm ERR! fstream_class: 'DirWriter', npm ERR! fstream_stack: npm ERR! [ '/usr/lib/nodejs/fstream/lib/writer.js:171:23', npm ERR! '/usr/lib/nodejs/mkdirp/index.js:37:53', npm ERR! 'Object.oncomplete (fs.js:107:15)' ] } npm ERR! npm ERR! Please try running this command again as root/Administrator.

npm ERR! System Linux 3.13.0-85-generic npm ERR! command "/usr/bin/nodejs" "/usr/bin/npm" "install" "--global" "getpapers" npm ERR! cwd /home/alex npm ERR! node -v v0.10.25 npm ERR! npm -v 1.3.10 npm ERR! path /usr/local/lib/node_modules npm ERR! fstream_path /usr/local/lib/node_modules/getpapers npm ERR! fstream_type Directory npm ERR! fstream_class DirWriter npm ERR! code EACCES npm ERR! errno 3 npm ERR! stack Error: EACCES, mkdir '/usr/local/lib/node_modules' npm ERR! fstream_stack /usr/lib/nodejs/fstream/lib/writer.js:171:23 npm ERR! fstream_stack /usr/lib/nodejs/mkdirp/index.js:37:53 npm ERR! fstream_stack Object.oncomplete (fs.js:107:15) npm ERR! npm ERR! Additional logging details can be found in: npm ERR! /home/alex/npm-debug.log npm ERR! not ok code 0 `

How do i get round the problem?

I also attach the log(see below)

npm-debug.txt

blahah commented 8 years ago

unfortunately node setup using apt-get requires you to use sudo to install new node packages. So this should work:

sudo npm install --global getpapers
alexmaina commented 8 years ago

Thanks....

psychemedia commented 8 years ago

I have a Dockerfile for building contentmine tools here: https://gist.github.com/psychemedia/fff4605eb04b40de7f1ea5d975e74873

More: https://blog.ouseful.info/2016/05/03/using-docker-as-a-personal-productvity-tool-running-command-line-apps/

psychemedia commented 8 years ago

I've started sketching some magics that make it easier to call the functions contained within the psychemedia/contentmine container from a code cell in a Jupyter/IPython notebook: Steps Towards Some Docker IPython Magic – Draft Magic to Call a Contentmine Container from a Jupyter Notebook Container.

tarrow commented 8 years ago

I'm closing this because it seem that the problem is solved; please open a new bug if you're still having trouble installing