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oacensus run --config example-oxford-2012.yaml --reports excel
matplitlib, numpy, scipy are required for PersonalOpenness
matplitlib, numpy, scipy are required for PersonalOpenness
running pubmed scraper
.oacensus/cache/ec1df7dc810c04e3d1afdbb82e3d13a6
calling scrape method...
there are 311 total articles matching the search
calling process method...
<ArticleList: u'<Article List (311 articles): pubmed search: "Oxford University"[affiliation] AND 2012[pdat]>'>
running oag scraper
.oacensus/cache/a584348f64b47e9de802565b39119e47
calling scrape method...
calling process method...
no license info returned for <Article: u'Excluded calyx following percutaneous ne...'>
no license info returned for <Article: u'Trigeminal neuralgia-divided but not cla...'>
no license info returned for <Article: u"British surgeons' experiences of a manda...">
no license info returned for <Article: u'The impact of HIV-1 infection and exposu...'>
no license info returned for <Article: u'Optimising immunogenicity with viral vec...'>
no license info returned for <Article: u'DOK7 congenital myasthenic syndrome.'>
no license info returned for <Article: u'Inferring diffusion in single live cells...'>
no license info returned for <Article: u'Risk of stroke and oral anticoagulant us...'>
no license info returned for <Article: u'Experimental evolution of adaptive pheno...'>
no license info returned for <Article: u'Thrombocytopenia, bleeding, and use of p...'>
no license info returned for <Article: u'Modulation of cortical excitability can ...'>
no license info returned for <Article: u'Continuous ambulatory peritoneal dialysi...'>
...
no license info returned for <Article: u'The danger of systematic bias in group-l...'>
no license info returned for <Article: u'Nanoparticle augmented radiation treatme...'>
no license info returned for <Article: u'Gene expression analysis of the embryoni...'>
no license info returned for <Article: u'Mental health of displaced and refugee c...'>
no license info returned for <Article: u'Should we allow organ donation euthanasi...'>
running doaj scraper
.oacensus/cache/0c1118ba41ec015feed7e4c9a615de1b
calling scrape method...
calling process method...
Traceback (most recent call last):
File "/usr/local/bin/oacensus", line 9, in <module>
load_entry_point('oacensus==0.0.2d', 'console_scripts', 'oacensus')()
File "/home/peter/sandbox/oacensus/oacensus/commands.py", line 27, in run
args.parse_and_run_command(sys.argv[1:], mod, default_command=default_cmd)
File "/usr/local/lib/python2.7/dist-packages/modargs/args.py", line 381, in parse_and_run_command
command_module(mod, command, options, cli_options=cli_options)
File "/usr/local/lib/python2.7/dist-packages/modargs/args.py", line 286, in command_module
function(**options)
File "/home/peter/sandbox/oacensus/oacensus/commands.py", line 191, in run_command
scraper.run()
File "/home/peter/sandbox/oacensus/oacensus/scraper.py", line 78, in run
return self.process()
File "/home/peter/sandbox/oacensus/oacensus/scrapers/doaj.py", line 40, in process
issn = row['ISSN'] or row['EISSN']
KeyError: 'ISSN'
I have python3 installed, but the run is looking for /usr/local/lib/python2.7...
oacensus run --config example-orcid.yaml --reports "personal-openness" produced,
matplitlib, numpy, scipy are required for PersonalOpenness
matplitlib, numpy, scipy are required for PersonalOpenness
removing old db file oacensus.sqlite3
running orcid scraper
.oacensus/cache/6eae9a31c606a0d8477db2ea78f40475
calling scrape method...
calling process method...
Traceback (most recent call last):
File "/usr/local/lib/python2.7/dist-packages/modargs/args.py", line 286, in command_module
function(**options)
File "/home/peter/sandbox/oacensus/oacensus/commands.py", line 191, in run_command
scraper.run()
File "/home/peter/sandbox/oacensus/oacensus/scraper.py", line 78, in run
return self.process()
File "/home/peter/sandbox/oacensus/oacensus/scrapers/orcids.py", line 44, in process
for pub in response.publications:
File "/usr/local/lib/python2.7/dist-packages/orcid/rest.py", line 107, in publications
self._load_works()
File "/usr/local/lib/python2.7/dist-packages/orcid/rest.py", line 101, in _load_works
+ '/orcid-works', headers = BASE_HEADERS)
TypeError: cannot concatenate 'str' and 'NoneType' objects
The text was updated successfully, but these errors were encountered:
I am using UBUNTU 14 LTS... After sucess on using install instructions I used example1.sh that suggest
oacensus run --config example-oxford-2012.yaml --reports excel
with examples/example-oxford-2012.yaml. It generated an error,I have python3 installed, but the run is looking for
/usr/local/lib/python2.7
...Similar problems on example2.sh
oacensus run --config example-orcid.yaml --reports "personal-openness"
produced,The text was updated successfully, but these errors were encountered: