test_rmd_reader AttributeError: 'NoneType' object has no attribute 'knit'

[chrplr]

Hello,

When I run python test_rmd_reader.py, I get the following error.

DEBUG:root:/pelican-plugins/rmd_reader
DEBUG:root:/pelican-plugins/rmd_reader/test-content
DEBUG:root:/pelican-plugins/rmd_reader/test-content/test.rmd
DEBUG:root:/pelican-plugins/rmd_reader/test-output
WARNING:pelican.settings:Feeds generated without SITEURL set properly may not be valid
WARNING:pelican.settings:No timezone information specified in the settings. Assuming your timezone is UTC for feed generation. Check http://docs.getpelican.com/en/latest/settings.html#timezone for more information
DEBUG:pelican:Adding current directory to system path
DEBUG:pelican:Temporarily adding PLUGIN_PATHS to system path
DEBUG:pelican:Loading plugin `rmd_reader`
DEBUG:pelican:Registering plugin `rmd_reader`
DEBUG:pelican:Restoring system path
DEBUG:RMD_READER:STARTING R
DEBUG:pelican.generators:Template list: [u'!simple/archives.html', u'!simple/article.html', u'!simple/author.html', u'!simple/authors.html', u'!simple/base.html', u'!simple/categories.html', u'!simple/category.html', u'!simple/gosquared.html', u'!simple/index.html', u'!simple/page.html', u'!simple/pagination.html', u'!simple/period_archives.html', u'!simple/tag.html', u'!simple/tags.html', u'!simple/translations.html', u'analytics.html', u'archives.html', u'article.html', u'article_infos.html', u'author.html', u'authors.html', u'base.html', u'categories.html', u'category.html', u'comments.html', u'disqus_script.html', u'github.html', u'gosquared.html', u'index.html', u'page.html', u'pagination.html', u'period_archives.html', u'tag.html', u'taglist.html', u'tags.html', u'translations.html', u'twitter.html']
DEBUG:pelican.readers:Read file test.rmd -> Article
DEBUG:pelican.readers:Signal article_generator_preread.send(ArticlesGenerator)
DEBUG:RMD_READER:RMD_READER_KNITR_QUIET = True
DEBUG:RMD_READER:RMD_READER_KNITR_ENCODING = UTF-8
DEBUG:RMD_READER:RMD_READER_CLEANUP = True
DEBUG:RMD_READER:RMD_READER_RENAME_PLOT = disable
ERROR:pelican.generators:Could not process ./test.rmd
AttributeError: 'NoneType' object has no attribute 'knit'

And when I run make html, rmd_reader crasheds on the .rmd file with the following error message:
| NameError: global name 'R_OBJECTS' is not defined

Note: the python module rpy2 is installed, as well as the R package knitr

Any hint?

[chrplr]

Hum, thisb is a python configuration issue I guess:

python test_rmd_reader.py fails, but
ipython test_rmd_reader.py works fine

(both python and ipython are from anaconda2 distrib)

The problem was solved by replacing libreadline.so.6 distributed by anaconda2 by the system (ubuntu 16.04) libreadline.so.6 (see ContinuumIO/anaconda-issues#152):

 cp /lib/x86_64-linux-gnu/libreadline.so.6 /home/..../anaconda2/lib/libreadline.so.6

So I close the issue.