OSX install fail - Githubissues

from @petermr, moved from http://pads.cottagelabs.com/p/contentminescraping

okapi:quickscrape pm286$ sudo npm install --global quickscrape
Password:
npm http GET https://registry.npmjs.org/quickscrape
npm http 304 https://registry.npmjs.org/quickscrape
npm http GET https://registry.npmjs.org/xpath
npm http GET https://registry.npmjs.org/winston
npm http GET https://registry.npmjs.org/which
npm http GET https://registry.npmjs.org/sleep
npm http GET https://registry.npmjs.org/commander
npm http GET https://registry.npmjs.org/spooky
npm http GET https://registry.npmjs.org/jsdom
npm http GET https://registry.npmjs.org/download
npm http 200 https://registry.npmjs.org/which
npm http GET https://registry.npmjs.org/which/-/which-1.0.5.tgz
npm http 304 https://registry.npmjs.org/sleep
npm http 200 https://registry.npmjs.org/xpath
npm http GET https://registry.npmjs.org/xpath/-/xpath-0.0.6.tgz
npm http 200 https://registry.npmjs.org/commander
npm http 304 https://registry.npmjs.org/spooky
npm http 200 https://registry.npmjs.org/winston
npm http 304 https://registry.npmjs.org/download
npm http GET https://registry.npmjs.org/winston/-/winston-0.7.3.tgz
npm http 200 https://registry.npmjs.org/which/-/which-1.0.5.tgz
npm http 200 https://registry.npmjs.org/xpath/-/xpath-0.0.6.tgz
npm http 200 https://registry.npmjs.org/winston/-/winston-0.7.3.tgz
npm http 200 https://registry.npmjs.org/jsdom
npm http GET https://registry.npmjs.org/jsdom/-/jsdom-0.10.6.tgz
npm http 200 https://registry.npmjs.org/jsdom/-/jsdom-0.10.6.tgz
npm http GET https://registry.npmjs.org/get-stdin
npm http GET https://registry.npmjs.org/each-async
npm http GET https://registry.npmjs.org/get-urls
npm http GET https://registry.npmjs.org/decompress
npm http GET https://registry.npmjs.org/nopt
npm http GET https://registry.npmjs.org/mkdirp
npm http GET https://registry.npmjs.org/request
npm http GET https://registry.npmjs.org/through2
npm http GET https://registry.npmjs.org/mkdirp
npm http 304 https://registry.npmjs.org/nopt
npm http 304 https://registry.npmjs.org/get-urls
npm http 304 https://registry.npmjs.org/get-stdin
npm http 304 https://registry.npmjs.org/decompress
npm http 304 https://registry.npmjs.org/each-async
npm http GET https://registry.npmjs.org/request
npm http GET https://registry.npmjs.org/htmlparser2
npm http GET https://registry.npmjs.org/nwmatcher
npm http GET https://registry.npmjs.org/xmlhttprequest
npm http GET https://registry.npmjs.org/cssom
npm http GET https://registry.npmjs.org/cssstyle
npm http GET https://registry.npmjs.org/contextify
npm http GET https://registry.npmjs.org/tiny-jsonrpc
npm http GET https://registry.npmjs.org/underscore
npm http GET https://registry.npmjs.org/async
npm http GET https://registry.npmjs.org/carrier
npm http GET https://registry.npmjs.org/readable-stream
npm http GET https://registry.npmjs.org/duplexer
npm http 200 https://registry.npmjs.org/mkdirp
npm http 200 https://registry.npmjs.org/mkdirp
npm http 304 https://registry.npmjs.org/through2
npm http GET https://registry.npmjs.org/cycle
npm http GET https://registry.npmjs.org/colors
npm http GET https://registry.npmjs.org/eyes
npm http GET https://registry.npmjs.org/pkginfo
npm http GET https://registry.npmjs.org/stack-trace
npm http GET https://registry.npmjs.org/async
npm http GET https://registry.npmjs.org/request
npm http GET https://registry.npmjs.org/nwmatcher
npm http 200 https://registry.npmjs.org/request
npm http 304 https://registry.npmjs.org/htmlparser2
npm http 304 https://registry.npmjs.org/nwmatcher
npm http 304 https://registry.npmjs.org/xmlhttprequest
npm http 304 https://registry.npmjs.org/cssom
npm http 304 https://registry.npmjs.org/cssstyle
npm http 304 https://registry.npmjs.org/contextify
npm http 304 https://registry.npmjs.org/tiny-jsonrpc
npm http 304 https://registry.npmjs.org/carrier

> sleep@1.1.5 install /usr/local/lib/node_modules/quickscrape/node_modules/sleep
> node build.js || nodejs build.js

gyp WARN EACCES user "root" does not have permission to access the dev dir "/Users/pm286/.node-gyp/0.10.28"
gyp WARN EACCES attempting to reinstall using temporary dev dir "/usr/local/lib/node_modules/quickscrape/node_modules/sleep/.node-gyp"
gyp http GET http://nodejs.org/dist/v0.10.28/node-v0.10.28.tar.gz
gyp http 200 http://nodejs.org/dist/v0.10.28/node-v0.10.28.tar.gz
gyp WARN install got an error, rolling back install
gyp http GET http://nodejs.org/dist/v0.10.28/SHASUMS.txt
gyp http GET http://nodejs.org/dist/v0.10.28/SHASUMS.txt
gyp WARN install got an error, rolling back install
gyp ERR! configure error 
gyp ERR! stack Error: unexpected eof
gyp ERR! stack     at decorate (/usr/local/lib/node_modules/npm/node_modules/fstream/lib/abstract.js:67:36)
gyp ERR! stack     at Extract.Abstract.error (/usr/local/lib/node_modules/npm/node_modules/fstream/lib/abstract.js:61:12)
gyp ERR! stack     at Extract._streamEnd (/usr/local/lib/node_modules/npm/node_modules/tar/lib/extract.js:75:22)
gyp ERR! stack     at BlockStream.<anonymous> (/usr/local/lib/node_modules/npm/node_modules/tar/lib/parse.js:50:8)
gyp ERR! stack     at BlockStream.EventEmitter.emit (events.js:92:17)
gyp ERR! stack     at BlockStream._emitChunk (/usr/local/lib/node_modules/npm/node_modules/block-stream/block-stream.js:203:10)
gyp ERR! stack     at BlockStream.resume (/usr/local/lib/node_modules/npm/node_modules/block-stream/block-stream.js:58:15)
gyp ERR! stack     at Extract.Reader.resume (/usr/local/lib/node_modules/npm/node_modules/fstream/lib/reader.js:253:34)
gyp ERR! stack     at DirWriter.ondrain (stream.js:61:14)
gyp ERR! stack     at DirWriter.EventEmitter.emit (events.js:92:17)
gyp ERR! System Darwin 13.2.0
gyp ERR! command "node" "/usr/local/lib/node_modules/npm/node_modules/node-gyp/bin/node-gyp.js" "rebuild" "--global" "quickscrape"
gyp ERR! cwd /usr/local/lib/node_modules/quickscrape/node_modules/sleep
gyp ERR! node -v v0.10.28
gyp ERR! node-gyp -v v0.13.0
gyp ERR! not ok 
[sleep]: Error: Failed to execute 'node-gyp rebuild --global quickscrape' (1)
sh: nodejs: command not found
npm http 200 https://registry.npmjs.org/underscore
npm http 304 https://registry.npmjs.org/readable-stream
npm http 304 https://registry.npmjs.org/duplexer
npm http GET https://registry.npmjs.org/adm-zip
npm http GET https://registry.npmjs.org/extname
npm http GET https://registry.npmjs.org/map-key
npm http GET https://registry.npmjs.org/rimraf
npm http GET https://registry.npmjs.org/stream-combiner
npm http GET https://registry.npmjs.org/tempfile
npm http GET https://registry.npmjs.org/tar
npm http GET https://registry.npmjs.org/xtend
npm http GET https://registry.npmjs.org/abbrev
npm http GET https://registry.npmjs.org/mime
npm http GET https://registry.npmjs.org/node-uuid
npm http GET https://registry.npmjs.org/forever-agent
npm http GET https://registry.npmjs.org/tunnel-agent
npm http GET https://registry.npmjs.org/tough-cookie
npm http GET https://registry.npmjs.org/form-data
npm http GET https://registry.npmjs.org/oauth-sign
npm http GET https://registry.npmjs.org/http-signature
npm http GET https://registry.npmjs.org/hawk
npm http GET https://registry.npmjs.org/aws-sign2
npm http GET https://registry.npmjs.org/json-stringify-safe
npm http GET https://registry.npmjs.org/qs
npm http 200 https://registry.npmjs.org/colors
npm http GET https://registry.npmjs.org/colors/-/colors-0.6.2.tgz
npm http 200 https://registry.npmjs.org/cycle
npm http GET https://registry.npmjs.org/cycle/-/cycle-1.0.3.tgz
npm http 200 https://registry.npmjs.org/eyes
npm http GET https://registry.npmjs.org/eyes/-/eyes-0.1.8.tgz
npm http 200 https://registry.npmjs.org/async
npm http 200 https://registry.npmjs.org/request
npm http 200 https://registry.npmjs.org/pkginfo
npm http GET https://registry.npmjs.org/pkginfo/-/pkginfo-0.3.0.tgz
npm http 200 https://registry.npmjs.org/stack-trace
npm http GET https://registry.npmjs.org/stack-trace/-/stack-trace-0.0.9.tgz
npm http 200 https://registry.npmjs.org/cycle/-/cycle-1.0.3.tgz
npm http GET https://registry.npmjs.org/bindings
npm http GET https://registry.npmjs.org/nan
npm http 200 https://registry.npmjs.org/eyes/-/eyes-0.1.8.tgz
npm http GET https://registry.npmjs.org/string_decoder
npm http GET https://registry.npmjs.org/core-util-is
npm http GET https://registry.npmjs.org/isarray
npm http GET https://registry.npmjs.org/inherits
npm http 200 https://registry.npmjs.org/colors/-/colors-0.6.2.tgz
npm http 304 https://registry.npmjs.org/extname
npm http 304 https://registry.npmjs.org/adm-zip
npm http 304 https://registry.npmjs.org/nwmatcher
npm http 304 https://registry.npmjs.org/rimraf
npm http 200 https://registry.npmjs.org/stream-combiner
npm http 304 https://registry.npmjs.org/map-key
npm http 200 https://registry.npmjs.org/pkginfo/-/pkginfo-0.3.0.tgz
npm http GET https://registry.npmjs.org/domutils
npm http GET https://registry.npmjs.org/domelementtype
npm http GET https://registry.npmjs.org/domhandler
npm http GET https://registry.npmjs.org/entities
npm http 304 https://registry.npmjs.org/tempfile
npm http 304 https://registry.npmjs.org/xtend
npm http 200 https://registry.npmjs.org/request
npm http GET https://registry.npmjs.org/request/-/request-2.16.6.tgz
npm http 200 https://registry.npmjs.org/stack-trace/-/stack-trace-0.0.9.tgz
npm http GET https://registry.npmjs.org/object-keys
npm http 304 https://registry.npmjs.org/abbrev
npm http 200 https://registry.npmjs.org/async
npm http 200 https://registry.npmjs.org/tar
npm http 200 https://registry.npmjs.org/mime
npm http 200 https://registry.npmjs.org/node-uuid
npm http 304 https://registry.npmjs.org/forever-agent
npm http 304 https://registry.npmjs.org/tunnel-agent
npm http 304 https://registry.npmjs.org/tough-cookie
npm http 304 https://registry.npmjs.org/form-data
npm http GET https://registry.npmjs.org/uuid
npm http 200 https://registry.npmjs.org/request/-/request-2.16.6.tgz
npm http GET https://registry.npmjs.org/lodash
npm http GET https://registry.npmjs.org/underscore.string
npm http 304 https://registry.npmjs.org/oauth-sign
npm http 304 https://registry.npmjs.org/http-signature
npm http 304 https://registry.npmjs.org/aws-sign2
npm http 304 https://registry.npmjs.org/hawk
npm http 304 https://registry.npmjs.org/json-stringify-safe
npm http GET https://registry.npmjs.org/ext-list
npm http GET https://registry.npmjs.org/underscore.string
npm http 304 https://registry.npmjs.org/qs
npm http 304 https://registry.npmjs.org/core-util-is
npm http 304 https://registry.npmjs.org/string_decoder
npm http 304 https://registry.npmjs.org/bindings
npm http 200 https://registry.npmjs.org/inherits
npm http 304 https://registry.npmjs.org/domutils
npm http 304 https://registry.npmjs.org/domelementtype
npm http 304 https://registry.npmjs.org/isarray
npm http 200 https://registry.npmjs.org/nan
npm http 304 https://registry.npmjs.org/entities
npm http 304 https://registry.npmjs.org/domhandler
npm http 304 https://registry.npmjs.org/underscore.string
npm http 304 https://registry.npmjs.org/underscore.string
npm http 304 https://registry.npmjs.org/object-keys
npm http 200 https://registry.npmjs.org/uuid
npm http 304 https://registry.npmjs.org/ext-list
npm http 200 https://registry.npmjs.org/lodash
npm http GET https://registry.npmjs.org/combined-stream
npm http GET https://registry.npmjs.org/assert-plus
npm http GET https://registry.npmjs.org/asn1
npm http GET https://registry.npmjs.org/ctype
npm http GET https://registry.npmjs.org/block-stream
npm http GET https://registry.npmjs.org/fstream
npm http GET https://registry.npmjs.org/punycode
npm http GET https://registry.npmjs.org/cryptiles
npm http GET https://registry.npmjs.org/hoek
npm http GET https://registry.npmjs.org/boom
npm http GET https://registry.npmjs.org/sntp
npm http GET https://registry.npmjs.org/cookie-jar
npm http GET https://registry.npmjs.org/aws-sign
npm http GET https://registry.npmjs.org/form-data/-/form-data-0.0.10.tgz
npm http GET https://registry.npmjs.org/hawk/-/hawk-0.10.2.tgz
npm http GET https://registry.npmjs.org/oauth-sign/-/oauth-sign-0.2.0.tgz
npm http GET https://registry.npmjs.org/forever-agent/-/forever-agent-0.2.0.tgz
npm http GET https://registry.npmjs.org/tunnel-agent/-/tunnel-agent-0.2.0.tgz
npm http GET https://registry.npmjs.org/json-stringify-safe/-/json-stringify-safe-3.0.0.tgz
npm http GET https://registry.npmjs.org/qs/-/qs-0.5.6.tgz
npm http 304 https://registry.npmjs.org/assert-plus
npm http 200 https://registry.npmjs.org/hawk/-/hawk-0.10.2.tgz
npm http 200 https://registry.npmjs.org/forever-agent/-/forever-agent-0.2.0.tgz
npm http 200 https://registry.npmjs.org/form-data/-/form-data-0.0.10.tgz
npm http 304 https://registry.npmjs.org/fstream
npm http 304 https://registry.npmjs.org/block-stream
npm http 200 https://registry.npmjs.org/oauth-sign/-/oauth-sign-0.2.0.tgz
npm http 200 https://registry.npmjs.org/json-stringify-safe/-/json-stringify-safe-3.0.0.tgz
npm http 200 https://registry.npmjs.org/qs/-/qs-0.5.6.tgz
npm http GET https://registry.npmjs.org/graceful-fs
npm http 200 https://registry.npmjs.org/tunnel-agent/-/tunnel-agent-0.2.0.tgz
npm http 304 https://registry.npmjs.org/asn1
npm http 304 https://registry.npmjs.org/punycode
npm http 304 https://registry.npmjs.org/ctype
npm http 304 https://registry.npmjs.org/cryptiles
npm http 200 https://registry.npmjs.org/cookie-jar
npm http GET https://registry.npmjs.org/cookie-jar/-/cookie-jar-0.2.0.tgz
npm http 304 https://registry.npmjs.org/sntp
npm http 304 https://registry.npmjs.org/boom
npm http 304 https://registry.npmjs.org/graceful-fs
npm http 200 https://registry.npmjs.org/aws-sign
npm http GET https://registry.npmjs.org/aws-sign/-/aws-sign-0.2.0.tgz
npm http 200 https://registry.npmjs.org/cookie-jar/-/cookie-jar-0.2.0.tgz
npm http 200 https://registry.npmjs.org/aws-sign/-/aws-sign-0.2.0.tgz
npm WARN engine hawk@0.10.2: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"})
npm http 200 https://registry.npmjs.org/hoek
npm http GET https://registry.npmjs.org/hoek/-/hoek-0.7.6.tgz
npm http GET https://registry.npmjs.org/boom/-/boom-0.3.8.tgz
npm http GET https://registry.npmjs.org/cryptiles/-/cryptiles-0.1.3.tgz
npm http GET https://registry.npmjs.org/sntp/-/sntp-0.1.4.tgz
npm http 200 https://registry.npmjs.org/sntp/-/sntp-0.1.4.tgz
npm http 200 https://registry.npmjs.org/hoek/-/hoek-0.7.6.tgz
npm http 200 https://registry.npmjs.org/boom/-/boom-0.3.8.tgz
npm http 304 https://registry.npmjs.org/combined-stream
npm http 200 https://registry.npmjs.org/cryptiles/-/cryptiles-0.1.3.tgz
npm http GET https://registry.npmjs.org/delayed-stream
npm WARN engine sntp@0.1.4: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"})
npm WARN engine cryptiles@0.1.3: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"})
npm WARN engine hoek@0.7.6: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"})
npm WARN engine boom@0.3.8: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"})
npm http 304 https://registry.npmjs.org/delayed-stream

> contextify@0.1.8 install /usr/local/lib/node_modules/quickscrape/node_modules/jsdom/node_modules/contextify
> node-gyp rebuild

gyp ERR! UNCAUGHT EXCEPTION 
gyp ERR! stack Error: ENOENT, no such file or directory
gyp ERR! stack     at process.cwd (/usr/local/lib/node_modules/npm/node_modules/graceful-fs/polyfills.js:8:19)
gyp ERR! stack     at Object.exports.resolve (path.js:309:52)
gyp ERR! stack     at configure (/usr/local/lib/node_modules/npm/node_modules/node-gyp/lib/configure.js:26:23)
gyp ERR! stack     at Object.self.commands.(anonymous function) [as configure] (/usr/local/lib/node_modules/npm/node_modules/node-gyp/lib/node-gyp.js:66:37)
gyp ERR! stack     at run (/usr/local/lib/node_modules/npm/node_modules/node-gyp/bin/node-gyp.js:72:30)
gyp ERR! stack     at process._tickCallback (node.js:419:13)
gyp ERR! System Darwin 13.2.0
gyp ERR! command "node" "/usr/local/lib/node_modules/npm/node_modules/node-gyp/bin/node-gyp.js" "rebuild"

/usr/local/lib/node_modules/npm/node_modules/graceful-fs/polyfills.js:8
    cwd = origCwd.call(process)
                  ^
Error: ENOENT, no such file or directory
    at process.cwd (/usr/local/lib/node_modules/npm/node_modules/graceful-fs/polyfills.js:8:19)
    at errorMessage (/usr/local/lib/node_modules/npm/node_modules/node-gyp/bin/node-gyp.js:119:28)
    at issueMessage (/usr/local/lib/node_modules/npm/node_modules/node-gyp/bin/node-gyp.js:125:3)
    at process.<anonymous> (/usr/local/lib/node_modules/npm/node_modules/node-gyp/bin/node-gyp.js:109:3)
    at process.EventEmitter.emit (events.js:95:17)
    at process._fatalException (node.js:272:26)

> contextify@0.1.8 install /usr/local/lib/node_modules/quickscrape/node_modules/jsdom-xpath/node_modules/jsdom/node_modules/contextify
> node-gyp rebuild

node.js:815
    var cwd = process.cwd();
                      ^
Error: ENOENT, no such file or directory
    at Function.startup.resolveArgv0 (node.js:815:23)
    at startup (node.js:58:13)
    at node.js:906:3
npm ERR! sleep@1.1.5 install: `node build.js || nodejs build.js`
npm ERR! Exit status 127
npm ERR! 
npm ERR! Failed at the sleep@1.1.5 install script.
npm ERR! This is most likely a problem with the sleep package,
npm ERR! not with npm itself.
npm ERR! Tell the author that this fails on your system:
npm ERR!     node build.js || nodejs build.js
npm ERR! You can get their info via:
npm ERR!     npm owner ls sleep
npm ERR! There is likely additional logging output above.
npm ERR! System Darwin 13.2.0
npm ERR! command "node" "/usr/local/bin/npm" "install" "--global" "quickscrape"
npm ERR! cwd /Users/pm286/workspace/quickscrape
npm ERR! node -v v0.10.28
npm ERR! npm -v 1.4.9
npm ERR! code ELIFECYCLE
npm ERR! 
npm ERR! Additional logging details can be found in:
npm ERR!     /Users/pm286/workspace/quickscrape/npm-debug.log
npm ERR! not ok code 0
okapi:quickscrape pm286$

@petermr seems like a problem with the nodejs installation. Can you post the output of the following:

node --version
nodejs
ls -alh /Users/pm286/.node-gyp/

node --version v0.10.28 okapi:quickscrape pm286$ nodejs -bash: nodejs: command not found okapi:quickscrape pm286$ ls -alh /Users/pm286/.node-gyp/ ls: /Users/pm286/.node-gyp/: No such file or directory okapi:quickscrape pm286$

On Sat, May 31, 2014 at 1:57 PM, Richard Smith-Unna < notifications@github.com> wrote:

@petermr https://github.com/petermr seems like a problem with the nodejs installation. Can you post the output of the following:

node --version

nodejs

ls -alh /Users/pm286/.node-gyp/

— Reply to this email directly or view it on GitHub https://github.com/ContentMine/quickscrape/issues/1#issuecomment-44746384 .

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

OK, the problem is caused by a dependency we're actually not using anymore. I'll remove them from the next version and ping you when it gets pushed (in the next couple of hours).

Brill, (spent a day writing the same library as I did 5 years ago! Happy to test your stuff)

On Sat, May 31, 2014 at 2:56 PM, Richard Smith-Unna < notifications@github.com> wrote:

OK, the problem is caused by a dependency we're actually not using anymore. I'll remove them from the next version and ping you when it gets pushed (in the next couple of hours).

— Reply to this email directly or view it on GitHub https://github.com/ContentMine/quickscrape/issues/1#issuecomment-44747607 .

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

You spent a day writing or I did? It's a shame how often things don't get reused.

In this case I've leant very heavily on existing Node.js packages, but in the stuff I've written from scratch there's necessarily some duplication from existing scrapers. The problem is that it's harder to use what they've created than to write it from scratch. And if I write it myself, I can document and test it properly (the fact that others don't do this is part of why I rewrote).

Sorry - nothing to do with you :-) I spent a day on train writing my OCR stuff and creating a library which I then found I had already written! No harm, just I could have gone further...

On Sat, May 31, 2014 at 3:35 PM, Richard Smith-Unna < notifications@github.com> wrote:

You spent a day writing or I did? It's a shame how often things don't get reused.

In this case I've leant very heavily on existing Node.js packages, but in the stuff I've written from scratch there's necessarily some duplication from existing scrapers. The problem is that it's harder to use what they've created than to write it from scratch. And if I write it myself, I can document and test it properly (the fact that others don't do this is part of why I rewrote).

— Reply to this email directly or view it on GitHub https://github.com/ContentMine/quickscrape/issues/1#issuecomment-44748477 .

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

Haha yeah I do that frequently too. Good for exercising the creative brain, if not the memory!

OK, I've pushed version 0.1.4. Please try again (sudo npm install --global quickscrape), and see the README on the project homepage for updated usage instructions.

Message received - am hacking it. (Wifi very slow here)

Thanks

On Sat, May 31, 2014 at 9:29 PM, Richard Smith-Unna < notifications@github.com> wrote:

OK, I've pushed version 0.1.4. Please try again (sudo npm install --global quickscrape), and see the README on the project homepage for updated usage instructions.

— Reply to this email directly or view it on GitHub https://github.com/ContentMine/quickscrape/issues/1#issuecomment-44757341 .

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

Afraid it failed again. Will post to issues hopefully

On Sat, May 31, 2014 at 9:55 PM, Peter Murray-Rust pm286@cam.ac.uk wrote:

Message received - am hacking it. (Wifi very slow here)

Thanks

On Sat, May 31, 2014 at 9:29 PM, Richard Smith-Unna < notifications@github.com> wrote:

OK, I've pushed version 0.1.4. Please try again (sudo npm install --global quickscrape), and see the README on the project homepage for updated usage instructions.

— Reply to this email directly or view it on GitHub https://github.com/ContentMine/quickscrape/issues/1#issuecomment-44757341 .

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

contextify@0.1.8 install /usr/local/lib/node_modules/quickscrape/node_modules/jsdom/node_modules/contextify node-gyp rebuild

gyp WARN EACCES user "root" does not have permission to access the dev dir "/Users/pm286/.node-gyp/0.10.28" gyp WARN EACCES attempting to reinstall using temporary dev dir "/usr/local/lib/node_modules/quickscrape/node_modules/jsdom/node_modules/contextify/.node-gyp" gyp http GET http://nodejs.org/dist/v0.10.28/node-v0.10.28.tar.gz gyp http 200 http://nodejs.org/dist/v0.10.28/node-v0.10.28.tar.gz

gyp ERR! Completion callback never invoked! gyp ERR! System Darwin 13.2.0 gyp ERR! command "node" "/usr/local/lib/node_modules/npm/node_modules/node-gyp/bin/node-gyp.js" "rebuild" gyp ERR! cwd /usr/local/lib/node_modules/quickscrape/node_modules/jsdom/node_modules/contextify gyp ERR! node -v v0.10.28 gyp ERR! node-gyp -v v0.13.0 gyp ERR! This is a bug in node-gyp. gyp ERR! Try to update node-gyp and file an Issue if it does not help: gyp ERR! https://github.com/TooTallNate/node-gyp/issues npm http 304 https://registry.npmjs.org/asn1 npm http 304 https://registry.npmjs.org/assert-plus npm http 304 https://registry.npmjs.org/ctype npm http GET https://registry.npmjs.org/fstream npm http GET https://registry.npmjs.org/block-stream npm http GET https://registry.npmjs.org/domhandler npm http GET https://registry.npmjs.org/domutils npm http GET https://registry.npmjs.org/domelementtype npm http GET https://registry.npmjs.org/entities npm http 304 https://registry.npmjs.org/combined-stream npm http GET https://registry.npmjs.org/punycode npm http GET https://registry.npmjs.org/cookie-jar npm http GET https://registry.npmjs.org/aws-sign npm http 304 https://registry.npmjs.org/block-stream npm http 304 https://registry.npmjs.org/domelementtype npm http GET https://registry.npmjs.org/hoek npm http GET https://registry.npmjs.org/boom npm http GET https://registry.npmjs.org/cryptiles npm http GET https://registry.npmjs.org/sntp npm http 304 https://registry.npmjs.org/fstream npm http 304 https://registry.npmjs.org/domhandler npm http 304 https://registry.npmjs.org/domutils npm http 304 https://registry.npmjs.org/punycode npm http 304 https://registry.npmjs.org/aws-sign npm http 304 https://registry.npmjs.org/cookie-jar npm http 304 https://registry.npmjs.org/hoek npm http GET https://registry.npmjs.org/delayed-stream npm http 304 https://registry.npmjs.org/boom npm http 304 https://registry.npmjs.org/cryptiles npm http 304 https://registry.npmjs.org/sntp npm WARN engine hawk@0.10.2: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"}) npm http 304 https://registry.npmjs.org/entities npm http 304 https://registry.npmjs.org/delayed-stream npm http GET https://registry.npmjs.org/graceful-fs npm http 304 https://registry.npmjs.org/graceful-fs npm WARN engine hoek@0.7.6: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"}) npm WARN engine boom@0.3.8: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"}) npm WARN engine cryptiles@0.1.3: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"}) npm WARN engine sntp@0.1.4: wanted: {"node":"0.8.x"} (current: {"node":"v0.10.28","npm":"1.4.9"}) npm ERR! contextify@0.1.8 install: node-gyp rebuild npm ERR! Exit status 6 npm ERR! npm ERR! Failed at the contextify@0.1.8 install script. npm ERR! This is most likely a problem with the contextify package, npm ERR! not with npm itself. npm ERR! Tell the author that this fails on your system: npm ERR! node-gyp rebuild npm ERR! You can get their info via: npm ERR! npm owner ls contextify npm ERR! There is likely additional logging output above.

npm ERR! System Darwin 13.2.0 npm ERR! command "node" "/usr/local/bin/npm" "install" "--global" "quickscrape" npm ERR! cwd /Users/pm286/workspace/quickscrape npm ERR! node -v v0.10.28 npm ERR! npm -v 1.4.9 npm ERR! code ELIFECYCLE npm ERR! npm ERR! Additional logging details can be found in: npm ERR! /Users/pm286/workspace/quickscrape/npm-debug.log npm ERR! not ok code 0

should I create a ./node-gyp directory?

Not sure what's going on there yet, can you post contents of /Users/pm286/workspace/quickscrape/npm-debug.log?

also can you try sudo npm install --global --unsafe-perm quickscrape?

There appears to be a known bug that causes something similar to this: https://github.com/TooTallNate/node-gyp/issues/115#issuecomment-28490552

final thing to try is:

env SUDO_UID= SUDO_USER= npm i
sudo npm install --global quckscrape

Many Thanks Richard,

Will do those things now.

Questions:

is this a Mac OSX issue or generally? i.e. can we kludge round by finding "pure" unix people in each group. (I am assuming it worksForYou; maybe get MarkM and Ross to beta test ...
shall I reinstall from scratch? If so suggest you give the complete list of commands , possibly including an initial "clean"

On Sun, Jun 1, 2014 at 12:54 AM, Richard Smith-Unna < notifications@github.com> wrote:

Not sure what's going on there yet, can you post contents of /Users/pm286/workspace/quickscrape/npm-debug.log?

— Reply to this email directly or view it on GitHub https://github.com/ContentMine/quickscrape/issues/1#issuecomment-44762511 .

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

Richard, It's 2 MB so I have mailed it - hope that OK.

Suggest we get Ross and Mark to try it.

On Sun, Jun 1, 2014 at 8:45 AM, Peter Murray-Rust pm286@cam.ac.uk wrote:

Many Thanks Richard,

Will do those things now.

Questions:

is this a Mac OSX issue or generally? i.e. can we kludge round by finding "pure" unix people in each group. (I am assuming it worksForYou; maybe get MarkM and Ross to beta test ...

shall I reinstall from scratch? If so suggest you give the complete list of commands , possibly including an initial "clean"

P.

On Sun, Jun 1, 2014 at 12:54 AM, Richard Smith-Unna < notifications@github.com> wrote:

Not sure what's going on there yet, can you post contents of /Users/pm286/workspace/quickscrape/npm-debug.log?

— Reply to this email directly or view it on GitHub https://github.com/ContentMine/quickscrape/issues/1#issuecomment-44762511 .

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

PROGRESS!

Seems to not fail. tail of console:

/usr/local/bin/quickscrape -> /usr/local/lib/node_modules/quickscrape/bin/quickscrape.js

quickscrape@0.1.4 /usr/local/lib/node_modules/quickscrape

├── which@1.0.5

├── commander@2.2.0

├── xpath@0.0.6

├── spooky@0.2.4 (duplexer@0.0.4, carrier@0.1.14, async@0.1.22, underscore@1.3.3, tiny-jsonrpc@0.2.1, readable-stream@1.0.27-1)

├── winston@0.7.3 (cycle@1.0.3, stack-trace@0.0.9, eyes@0.1.8, colors@0.6.2, async@0.2.10, pkginfo@0.3.0, request@2.16.6)

├── download@0.1.17 (get-stdin@0.1.0, each-async@0.1.3, get-urls@0.1.2, mkdirp@0.3.5, nopt@2.2.1, through2@0.4.2, decompress@0.2.3, request@2.36.0)

└── jsdom@0.10.6 (xmlhttprequest@1.6.0, cssom@0.3.0, nwmatcher@1.3.3, htmlparser2@3.7.2, cssstyle@0.2.14, request@2.36.0, contextify@0.1.8)

okapi:quickscrape pm286$

Will try to run it and get back to you..

VERY much appreciated

On Sun, Jun 1, 2014 at 8:56 AM, Peter Murray-Rust pm286@cam.ac.uk wrote:

Richard, It's 2 MB so I have mailed it - hope that OK.

Suggest we get Ross and Mark to try it.

On Sun, Jun 1, 2014 at 8:45 AM, Peter Murray-Rust pm286@cam.ac.uk wrote:

Many Thanks Richard,

Will do those things now.

Questions:

is this a Mac OSX issue or generally? i.e. can we kludge round by finding "pure" unix people in each group. (I am assuming it worksForYou; maybe get MarkM and Ross to beta test ...

shall I reinstall from scratch? If so suggest you give the complete list of commands , possibly including an initial "clean"

P.

On Sun, Jun 1, 2014 at 12:54 AM, Richard Smith-Unna < notifications@github.com> wrote:

Not sure what's going on there yet, can you post contents of /Users/pm286/workspace/quickscrape/npm-debug.log?

— Reply to this email directly or view it on GitHub https://github.com/ContentMine/quickscrape/issues/1#issuecomment-44762511 .

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

Peter Murray-Rust Reader in Molecular Informatics Unilever Centre, Dep. Of Chemistry University of Cambridge CB2 1EW, UK +44-1223-763069

Looks like that has worked. Not clear to me yet whether it's OSX specific.

It's not OSX-specific, but the --unsafe-perms flag fixes it for now. We'll have to update as the the package manager gets fixed, but I'll close it in the meantime.

ContentMine / quickscrape

OSX install fail #1