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Commit Graph

98 Commits

Author SHA1 Message Date
113e7cd8b6
csv_metadata_quality/app.py: Add ability to skip fields
The user may want to skip the checking and fixing of certain fields
in the input file.
2019-08-27 00:10:07 +03:00
884e8f970d
csv_metadata_quality/check.py: Simplify AGROVOC check
I recycled this code from a separate agrovoc-lookup.py script that
checks lines in a text file to see if they are valid AGROVOC terms
or not. There I was concerned about skipping comments or something
I think, but we don't need to check that here. We simply check the
term that is in the field and inform the user if it's valid or not.
2019-08-21 16:35:29 +03:00
ed5612fbcf
Add column name to output in date checks
This makes it easier to understand where the error is in case a CSV
has multiple date fields, for example:

    Missing date (dc.date.issued).
    Missing date (dc.date.issued[]).

If you have 126 items and you get 126 "Missing date" messages then
it's likely that 100 of the items have dates in one field, and the
others have dates in other field.
2019-08-21 15:31:12 +03:00
7255bf4707
Version 0.2.1 2019-08-11 10:39:39 +03:00
232ff99898
csv_metadata_quality/fix.py: Add more unneccessary Unicode fixes
Add a check for soft hyphens (U+00AD). In one sample CSV I have a
normal hyphen followed by a soft hyphen in an ISBN. This causes the
ISBN validation to fail.
2019-08-11 00:07:21 +03:00
13d5221378
csv_metadata_quality/check.py: Fix test for False 2019-08-10 23:52:53 +03:00
9ce7dc6716
Add check for uncommon filenames
Generally we want people to upload documents in accessible formats
like PDF, Word, Excel, and PowerPoint. This check warns if a file
is using an uncommon extension.
2019-08-10 23:41:16 +03:00
5ff584a8d7
Version 0.2.0 2019-08-09 01:39:51 +03:00
62fea95087
Improve suspicious character detection
Now it will print just the part of the metadata value that contains
the suspicious character (up to 80 characters, so we don't make the
line break on terminals that use 80 character width by default).

Also, print the name of the field in which the metadata value is so
that it is easier for the user to locate.
2019-08-09 01:25:40 +03:00
8772bdec51
csv_metadata_quality/app.py: Explicitly exit with success 2019-08-04 09:10:37 +03:00
6d4ecd75aa
csv_metadata_quality/app.py: Close files before exit 2019-08-04 09:10:19 +03:00
f4e7fd73f5
csv_metadata_quality/app.py: Handle Ctrl-C
Instead of printing an ugly two-page stack trace.
2019-08-03 21:11:57 +03:00
85ae7bdc5a
Increment version to 0.1.0 2019-08-02 00:12:47 +03:00
0561300ebe
Add option to print version with --version or -V
I guess `-v` is more commonly used for "verbose" so I will use the
short option of `-V` for version.
2019-08-02 00:09:54 +03:00
bf876a046a
Rework AGROVOC validation
AGROVOC validation is now disabled by default, but can be enabled
on a field-by-field basis. For example, countries and regions are
also present in AGROVOC. Fields with these values can be enabled
using the new `--agrovoc-fields` option.

I reworked the script output to show the field name when printing
an invalid term so that the user knows in which field the term is.
2019-08-01 23:51:58 +03:00
576b3a3638
csv_metadata_quality/__main__.py: Fix spacing
Identified by flake8.
2019-08-01 23:28:16 +03:00
9100efdf50
Re-work as a proper standalone Python package
Add a setup.py so that installation is easier and a standalone CLI
script called csv-metadata-quality is provided. Now the user only
needs to run this from a virtual environment inside the project
directory:

    $ pip install .

Eventually I could publish this on PyPi when I settle on a more
appropriate package name.

See: https://packaging.python.org/tutorials/packaging-projects/
See: https://chriswarrick.com/blog/2014/09/15/python-apps-the-right-way-entry_points-and-scripts/
2019-07-31 17:34:36 +03:00
40d5f7d81b
Add support for removing newlines
This was tricky because of the nature of newlines. In actuality we
are removing Unix line feeds here (U+000A) because Windows carriage
returns are actually already removed by the string stripping in the
whitespace fix.

Creating the test case in Vim was difficult because I couldn't fig-
ure out how to manually enter a line feed character. In the end I
used a search and replace on a known pattern like "ALAN", replacing
it with \r. Neither entering the Unicode code point (U+000A) direc-
tly or typing an "Enter" character after ^V worked. Grrr.
2019-07-30 20:05:12 +03:00
3c798fb504
Use pycountry instead of iso-639 for languages
The latter is a fork that hasn't been updated since 2016 and the
original still seems to be well maintained, with recent database
updates as well as tests for Python 3.7.

Also, pycountry supports ISO 3166-2 (administrative zones), which
we could eventually use for sub regions.
2019-07-30 16:39:26 +03:00
4e3511cd55
csv_metadata_quality/check.py: Fix AGROVOC lookup
We actually only need to see if there are more than zero matches
because a term like "Nigeria" will match in English, Spanish, etc,
whereas terms that *really* don't match will have zero results.
2019-07-30 14:51:44 +03:00
1f65a28307
Add support for validating subjects against AGROVOC
Checks values in the dc.subject or dcterms.subject field against the
AGROVOC REST API hosted by FAO. Code borrowed from agrovoc-lookup.py.

See: http://agrovoc.uniroma2.it/agrovoc/agrovoc/en/
See: https://github.com/ilri/DSpace/blob/5_x-prod/agrovoc-lookup.py
2019-07-30 00:30:31 +03:00
a36454a3ac
Add support for validating languages
Will validate against ISO 639-2 or ISO 639-3 depending on how long
the language field is. Otherwise will return that the language is
invalid.

Does not currently have any support for generic values like "Other".
2019-07-29 18:59:42 +03:00
1e444cf040
Add fix for duplicate metadata values 2019-07-29 18:05:03 +03:00
d7888d59a8
csv_metadata_quality/check.py: Return date even if it is invalid
Otherwise it is missing from the final CSV and then we can't even
fix it. :)
2019-07-29 17:40:14 +03:00
50ae4e17f2
csv_metadata_quality/fix.py: Fix indent 2019-07-29 17:14:48 +03:00
fa4fa3491b
Add check for "suspicious" characters
These standalone characters often indicate issues with encoding or
copy/paste in languages with accents like French and Spanish. For
example: foreˆt should be forêt.

It is not possible to fix these issues automatically, but this will
print a warning so you can notify the owner of the data.
2019-07-29 17:08:49 +03:00
8047a57cc5
Add support for fixing "unnecessary" Unicode
These are things like non-breaking spaces, "replacement" characters,
etc that add nothing to the metadata and often cause errors during
parsing or displaying in a UI.
2019-07-29 16:38:10 +03:00
d73f7b54b1
csv_metadata_quality/app.py: Improve comments 2019-07-29 16:24:35 +03:00
42920e9c7c
Test Python regular expression matches directly
Match objects always have a boolean value of True.

See: https://docs.python.org/3.7/library/re.html
2019-07-29 16:16:30 +03:00
7b5db1f5d9
csv_metadata_quality/app.py: Remove erroneous comment 2019-07-29 16:15:25 +03:00
40e77db713
Add "unsafe fixes" runtime option
In this case it fixes occurences of invalid multi-value separators.
DSpace uses "||" to separate multiple values in one field, but our
editors sometimes give us files with mistakes like "|". We can fix
these to be correct multi-value separators if we are sure that the
metadata is not actually using "|" for some legitimate purpose.
2019-07-28 22:53:39 +03:00
a93b5b31c5
Add support for command line arguments
Currently only supports specifying input and output files with -i
and -o. Eventually I'll add more options like dry run, debug, and
maybe things like forcing unsafe fixes.
2019-07-28 20:31:57 +03:00
87b1997051
Fix whitespace errors found by flake8 2019-07-28 17:47:28 +03:00
aadb3117eb
csv_metadata_quality/app.py: Remove unused test input files 2019-07-28 17:45:05 +03:00
e88d35ace3
csv_metadata_quality/app.py: Use regex in column match
Check for a column that has "issn" or "isbn" in the name rather
than by its explicit name, as the column is dc.identifier.issn now,
but will be cg.issn in the future if CG Core v2 happens.
2019-07-28 17:27:20 +03:00
196bb434fa
Add date validation
I'm only concerned with validating issue dates here. In DSpace they
are generally always YYYY, YYY-MM, or YYYY-MM-DD (though in theory
they could be any valid ISO8601 format).

This also checks for cases where the date is missing and where the
metadata has specified multiple dates like "1990||1991", as this is
valid, but there is no practical value for it in our system.
2019-07-28 16:11:36 +03:00
e2bb2d4df9
Main function should be "main()" 2019-07-27 23:09:16 +03:00
c47c064a13
Make output less debuggy 2019-07-27 09:21:13 +03:00
2b41f9416b
csv_metadata_quality/fix.py: Remove extra newline 2019-07-27 01:29:22 +03:00
3cf9f9452b
csv_metadata_quality/check.py: Always return field
We always need to return the field back so apply doesn't set it to
null when creating the new data frame.
2019-07-27 01:28:08 +03:00
18f26c343d
csv_metadata_quality/app.py: Fix path to test.csv 2019-07-27 00:25:30 +03:00
84c3b17678
csv_metadata_quality/app.py: Add comment 2019-07-26 23:49:13 +03:00
aaf3537ba4
Add check for invalid multi-value separators 2019-07-26 23:48:24 +03:00
02f9d8a736
csv_metadata_quality/check.py: Add check for missing isbn values 2019-07-26 23:45:18 +03:00
dfd961d720
Bring test.csv into project 2019-07-26 23:14:37 +03:00
e160b17fb0
Add ISSN and ISBN checks using python-stdnum 2019-07-26 23:14:10 +03:00
30a4b0005f
csv_metadata_quality/fix.py: Remove test function 2019-07-26 22:56:40 +03:00
232d28e13e
Refactor as package with subpackages
This makes it cleaner for introducing checks, fixes, tests, docs,
and tests in the future. Currently can be run like this:

  python -m csv_metadata_quality

CSV input and output paths are still hard coded.

See: https://dev.to/codemouse92/dead-simple-python-project-structure-and-imports-38c6
2019-07-26 22:11:10 +03:00