Command not found?

[Gabriel-p]

elementary OS Freya (0.3)

$ python
Python 3.5.1 |Anaconda 4.1.0 (64-bit)| (default, Jun 15 2016, 15:32:45)
[GCC 4.4.7 20120313 (Red Hat 4.4.7-1)] on linux
Type "help", "copyright", "credits" or "license" for more information.

I just installed this package with pip install latexdiffcite --user. the process ended successfully:

Downloading/unpacking latexdiffcite
  Downloading latexdiffcite-1.0.4-py2.py3-none-any.whl
Installing collected packages: latexdiffcite
Successfully installed latexdiffcite
Cleaning up...

but if I try to invoke the app in terminal I get:

$ latexdiffcite
latexdiffcite: command not found

Did I miss a step? Could this be related to Anaconda?

[cmeeren]

Maybe the --user option places the binary somewhere outside your PATH. I don't know where it's supposed to end up (and I'm not on Linux right now so I can't check), but I think it should be in some Scripts subdirectory in the Anaconda directory. Try finding the binary by searching system-wide for latexdiffcite (locate latexdiffcite might work, but if not, search more thoroughly using another tool). Also try invoking it using python -m latexdiffcite.

[Gabriel-p]

Thanks, the command python -m latexdiffcite worked.

Sadly, the package could not process my files due to:

processing old revision
Traceback (most recent call last):
  File "/usr/lib/python2.7/runpy.py", line 162, in _run_module_as_main
    "__main__", fname, loader, pkg_name)
  File "/usr/lib/python2.7/runpy.py", line 72, in _run_code
    exec code in run_globals
  File "/home/gabriel/.local/lib/python2.7/site-packages/latexdiffcite/__main__.py", line 13, in <module>
    sys.exit(main())
  File "/home/gabriel/.local/lib/python2.7/site-packages/latexdiffcite/latexdiffcite.py", line 163, in main
    run(parsed_args)
  File "/home/gabriel/.local/lib/python2.7/site-packages/latexdiffcite/latexdiffcite.py", line 296, in run
    process_revision('old')
  File "/home/gabriel/.local/lib/python2.7/site-packages/latexdiffcite/latexdiffcite.py", line 364, in process_revision
    make_author_year_tokens_from_bib(oldnew)
  File "/home/gabriel/.local/lib/python2.7/site-packages/latexdiffcite/latexdiffcite.py", line 597, in make_author_year_tokens_from_bib
    raise ValueError('Reference \'' + ref + '\' not found in any bibtex file')
ValueError: Reference '\odot' not found in any bibtex file

[cmeeren]

Where does \odot occur? Inside some cite command?

[Gabriel-p]

I doubt it, but how can I tell from that ValueError message?

[cmeeren]

Enable debug logging or terminal output, see the usage instructions.

[slayoo]

In relation to ftilmann/latexdiff#17, I'm posting here the stack trace and relevant debug messages that might be relevant:

\citep[text text $\dot{T}$][text text]{label}.

...
[latexdiffcite.py: 388             get_all_ref_keys() ]    DEBUG  references found: [u'T']
[latexdiffcite.py: 390             get_all_ref_keys() ]    DEBUG  new references: [u'T']
...
[latexdiffcite.py: 547 make_author_year_tokens_from_bib() ]    DEBUG  formatting T
[latexdiffcite.py: 133            destroy_tempfiles() ]    DEBUG  deleting temp file /tmp/tmp_old_wr0Uqv.tex
[latexdiffcite.py: 136            destroy_tempfiles() ]    DEBUG  deleting temp file /tmp/tmp_new_Z43Btx.tex

Traceback (most recent call last):
  File "/usr/local/bin/latexdiffcite", line 11, in <module>
    sys.exit(main())
  File "/usr/local/lib/python2.7/dist-packages/latexdiffcite/latexdiffcite.py", line 163, in main
    run(parsed_args)
  File "/usr/local/lib/python2.7/dist-packages/latexdiffcite/latexdiffcite.py", line 296, in run
    process_revision('old')
  File "/usr/local/lib/python2.7/dist-packages/latexdiffcite/latexdiffcite.py", line 364, in process_revision
    make_author_year_tokens_from_bib(oldnew)
  File "/usr/local/lib/python2.7/dist-packages/latexdiffcite/latexdiffcite.py", line 551, in make_author_year_tokens_from_bib
    entry = re.findall(p, bib_contents)[0]
IndexError: list index out of range

[cmeeren]

That traceback is different from ftilmann/latexdiff#17 (comment). Could you explain why?

[slayoo]

There, I've used the -bbl option

[cmeeren]

I've released a new version now, see if it's fixed.

[slayoo]

Thanks!

It seems to have fixed this issue:

[latexdiffcite.py: 664          replace_refs_in_tex() ]    DEBUG  replacing \citep[e.g. in the cooling rate $\dot{T}$, see][discussion
  of Fig.~10-11 and other studies referenced therein]{Hammer_2015}
[latexdiffcite.py: 793                  format_refs() ]    DEBUG  result: [\ldiffentity{\textit{Hammer et~al.}, \ldiffentity{2015}}, e.g. in the cooling rate $\dot{T}$, see]

but execution still fails:

[latexdiffcite.py: 691          replace_refs_in_tex() ]    DEBUG  adding declaration of citation protection command before \begin{document}: \newcommand{\ldiffentity}[1]{#1}
[latexdiffcite.py: 371             process_revision() ]    DEBUG  writing new changes to temp file
[latexdiffcite.py: 801            write_tex_to_temp() ]    DEBUG  writing to file /tmp/tmp_new_iFNmCh.tex
[latexdiffcite.py: 811                run_latexdiff() ]     INFO  running latexdiff /tmp/tmp_old_zJZUTf.tex /tmp/tmp_new_iFNmCh.tex
[latexdiffcite.py: 812                run_latexdiff() ]    DEBUG  sending result to diff.tex
[latexdiffcite.py: 133            destroy_tempfiles() ]    DEBUG  deleting temp file /tmp/tmp_old_zJZUTf.tex
[latexdiffcite.py: 136            destroy_tempfiles() ]    DEBUG  deleting temp file /tmp/tmp_new_iFNmCh.tex
Traceback (most recent call last):
  File "/usr/local/bin/latexdiffcite", line 11, in <module>
    sys.exit(main())
  File "/usr/local/lib/python2.7/dist-packages/latexdiffcite/latexdiffcite.py", line 163, in main
    run(parsed_args)
  File "/usr/local/lib/python2.7/dist-packages/latexdiffcite/latexdiffcite.py", line 298, in run
    run_latexdiff(Files.tex_old_tmp_path, Files.tex_new_tmp_path)
  File "/usr/local/lib/python2.7/dist-packages/latexdiffcite/latexdiffcite.py", line 818, in run_latexdiff
    raise ValueError('latexdiff returned with code {}. Error from latexdiff:\n\n'.format(ret_code) + stderr)
ValueError: latexdiff returned with code 255. Error from latexdiff:

Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\\includeonly{ <-- HERE (.*?)}/ at /usr/bin/latexdiff line 1572.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/(^(?:[^%\n]|\\%)*)\\bibliography{ <-- HERE (.*?)}/ at /usr/bin/latexdiff line 1607.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/(^(?:[^%\n]|\\%)*)\\subfile{ <-- HERE (.*?)}/ at /usr/bin/latexdiff line 1622.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/(?<!\\)\\{ <-- HERE / at /usr/bin/latexdiff line 2351.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\\begin{ <-- HERE MATHMODE}((?:(.(?!(?<!\\)\&|\\\\))*)?)\\end{MATHMODE}/ at /usr/bin/latexdiff line 2676.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\\begin{MATHMODE}((?:(.(?!(?<!\\)\&|\\\\))*)?)\\end{ <-- HERE MATHMODE}/ at /usr/bin/latexdiff line 2676.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\\begin{ <-- HERE MATHMODE}(.*?)\\end{MATHMODE}/ at /usr/bin/latexdiff line 2678.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\\begin{MATHMODE}(.*?)\\end{ <-- HERE MATHMODE}/ at /usr/bin/latexdiff line 2678.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\\end{ <-- HERE SQUAREBRACKET}/ at /usr/bin/latexdiff line 2759.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\\begin{ <-- HERE SQUAREBRACKET}/ at /usr/bin/latexdiff line 2760.
\\begin\{document\} and \\end\{document\} not in the correct order or not present as a pair. at /usr/bin/latexdiff line 1706.

Any hints?

[cmeeren]

The second code block is ftilmann/latexdiff#61, so try upgrading latexdiff (not latexdiffcite).

From the first code block, there seems to be a problem with the placement of pre-notes and post-notes. It seems the pre-notes are placed after the references, and the post-note is hidden. If this is still a problem after you have upgraded latexdiff and got it working, please submit a new issue, and please also post your configuration file, if any.