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tests: apply fixes from fixit
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RewriteToLiteral: It's slower to call list() than using the empty literal
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@ -257,7 +257,7 @@ def test_check_incorrect_iso_639_1_language(capsys):
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title = "A randomised vaccine field trial in Kenya demonstrates protection against wildebeest-associated malignant catarrhal fever in cattle"
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title = "A randomised vaccine field trial in Kenya demonstrates protection against wildebeest-associated malignant catarrhal fever in cattle"
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language = "es"
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language = "es"
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exclude = list()
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exclude = []
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# Create a dictionary to mimic Pandas series
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# Create a dictionary to mimic Pandas series
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row = {"dc.title": title, "dc.language.iso": language}
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row = {"dc.title": title, "dc.language.iso": language}
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@ -277,7 +277,7 @@ def test_check_incorrect_iso_639_3_language(capsys):
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title = "A randomised vaccine field trial in Kenya demonstrates protection against wildebeest-associated malignant catarrhal fever in cattle"
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title = "A randomised vaccine field trial in Kenya demonstrates protection against wildebeest-associated malignant catarrhal fever in cattle"
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language = "spa"
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language = "spa"
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exclude = list()
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exclude = []
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# Create a dictionary to mimic Pandas series
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# Create a dictionary to mimic Pandas series
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row = {"dc.title": title, "dc.language.iso": language}
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row = {"dc.title": title, "dc.language.iso": language}
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@ -297,7 +297,7 @@ def test_check_correct_iso_639_1_language():
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title = "A randomised vaccine field trial in Kenya demonstrates protection against wildebeest-associated malignant catarrhal fever in cattle"
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title = "A randomised vaccine field trial in Kenya demonstrates protection against wildebeest-associated malignant catarrhal fever in cattle"
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language = "en"
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language = "en"
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exclude = list()
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exclude = []
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# Create a dictionary to mimic Pandas series
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# Create a dictionary to mimic Pandas series
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row = {"dc.title": title, "dc.language.iso": language}
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row = {"dc.title": title, "dc.language.iso": language}
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@ -313,7 +313,7 @@ def test_check_correct_iso_639_3_language():
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title = "A randomised vaccine field trial in Kenya demonstrates protection against wildebeest-associated malignant catarrhal fever in cattle"
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title = "A randomised vaccine field trial in Kenya demonstrates protection against wildebeest-associated malignant catarrhal fever in cattle"
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language = "eng"
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language = "eng"
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exclude = list()
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exclude = []
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# Create a dictionary to mimic Pandas series
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# Create a dictionary to mimic Pandas series
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row = {"dc.title": title, "dc.language.iso": language}
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row = {"dc.title": title, "dc.language.iso": language}
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@ -407,7 +407,7 @@ def test_check_doi_field():
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# the citation and a DOI field.
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# the citation and a DOI field.
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d = {"cg.identifier.doi": doi, "dcterms.bibliographicCitation": citation}
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d = {"cg.identifier.doi": doi, "dcterms.bibliographicCitation": citation}
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series = pd.Series(data=d)
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series = pd.Series(data=d)
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exclude = list()
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exclude = []
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result = check.citation_doi(series, exclude)
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result = check.citation_doi(series, exclude)
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@ -418,7 +418,7 @@ def test_check_doi_only_in_citation(capsys):
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"""Test an item with a DOI in its citation, but no DOI field."""
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"""Test an item with a DOI in its citation, but no DOI field."""
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citation = "Orth, A. 2021. Testing all the things. doi: 10.1186/1743-422X-9-218"
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citation = "Orth, A. 2021. Testing all the things. doi: 10.1186/1743-422X-9-218"
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exclude = list()
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exclude = []
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# Emulate a column in a transposed dataframe (which is just a series), with
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# Emulate a column in a transposed dataframe (which is just a series), with
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# an empty DOI field and a citation containing a DOI.
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# an empty DOI field and a citation containing a DOI.
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@ -439,7 +439,7 @@ def test_title_in_citation():
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title = "Testing all the things"
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title = "Testing all the things"
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citation = "Orth, A. 2021. Testing all the things."
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citation = "Orth, A. 2021. Testing all the things."
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exclude = list()
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exclude = []
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# Emulate a column in a transposed dataframe (which is just a series), with
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# Emulate a column in a transposed dataframe (which is just a series), with
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# the title and citation.
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# the title and citation.
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@ -456,7 +456,7 @@ def test_title_not_in_citation(capsys):
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title = "Testing all the things"
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title = "Testing all the things"
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citation = "Orth, A. 2021. Testing all teh things."
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citation = "Orth, A. 2021. Testing all teh things."
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exclude = list()
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exclude = []
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# Emulate a column in a transposed dataframe (which is just a series), with
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# Emulate a column in a transposed dataframe (which is just a series), with
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# the title and citation.
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# the title and citation.
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@ -477,7 +477,7 @@ def test_country_matches_region():
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country = "Kenya"
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country = "Kenya"
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region = "Eastern Africa"
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region = "Eastern Africa"
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exclude = list()
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exclude = []
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# Emulate a column in a transposed dataframe (which is just a series)
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# Emulate a column in a transposed dataframe (which is just a series)
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d = {"cg.coverage.country": country, "cg.coverage.region": region}
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d = {"cg.coverage.country": country, "cg.coverage.region": region}
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@ -495,7 +495,7 @@ def test_country_not_matching_region(capsys):
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country = "Kenya"
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country = "Kenya"
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region = ""
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region = ""
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missing_region = "Eastern Africa"
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missing_region = "Eastern Africa"
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exclude = list()
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exclude = []
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# Emulate a column in a transposed dataframe (which is just a series)
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# Emulate a column in a transposed dataframe (which is just a series)
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d = {
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d = {
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@ -131,7 +131,7 @@ def test_fix_country_not_matching_region():
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country = "Kenya"
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country = "Kenya"
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region = ""
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region = ""
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missing_region = "Eastern Africa"
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missing_region = "Eastern Africa"
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exclude = list()
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exclude = []
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# Emulate a column in a transposed dataframe (which is just a series)
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# Emulate a column in a transposed dataframe (which is just a series)
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d = {
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d = {
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