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Commit 6fd891b3 authored by Nicolas  MAILLET's avatar Nicolas MAILLET
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change local.path to str for test

parent 4a447f96
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...@@ -80,7 +80,7 @@ def test_output_results(capsys, tmpdir): ...@@ -80,7 +80,7 @@ def test_output_results(capsys, tmpdir):
fmt = "csv" fmt = "csv"
quiet = False quiet = False
verbose = 0 verbose = 0
core.output_results(output_file, all_seq_digested, fmt, quiet, verbose) core.output_results(str(output_file), all_seq_digested, fmt, quiet, verbose)
out, err = capsys.readouterr() out, err = capsys.readouterr()
assert out == output_file.read() assert out == output_file.read()
assert output_file.read() == "Original_header,No_peptide,Enzyme,Cleaving_"\ assert output_file.read() == "Original_header,No_peptide,Enzyme,Cleaving_"\
...@@ -97,7 +97,7 @@ def test_output_results(capsys, tmpdir): ...@@ -97,7 +97,7 @@ def test_output_results(capsys, tmpdir):
fmt = "tsv" fmt = "tsv"
quiet = False quiet = False
verbose = 0 verbose = 0
core.output_results(output_file, all_seq_digested, fmt, quiet, verbose) core.output_results(str(output_file), all_seq_digested, fmt, quiet, verbose)
out, err = capsys.readouterr() out, err = capsys.readouterr()
assert out == output_file.read() assert out == output_file.read()
assert output_file.read() == "Original_header\tNo_peptide\tEnzyme\tCleavi"\ assert output_file.read() == "Original_header\tNo_peptide\tEnzyme\tCleavi"\
...@@ -115,7 +115,7 @@ def test_output_results(capsys, tmpdir): ...@@ -115,7 +115,7 @@ def test_output_results(capsys, tmpdir):
fmt = "fasta" fmt = "fasta"
quiet = False quiet = False
verbose = 0 verbose = 0
core.output_results(output_file, all_seq_digested, fmt, quiet, verbose) core.output_results(str(output_file), all_seq_digested, fmt, quiet, verbose)
out, err = capsys.readouterr() out, err = capsys.readouterr()
assert out == output_file.read() assert out == output_file.read()
assert output_file.read() == ">Input_0_fake_enzyme1_4_4_534.52598_3.6\nWQ"\ assert output_file.read() == ">Input_0_fake_enzyme1_4_4_534.52598_3.6\nWQ"\
...@@ -132,7 +132,7 @@ def test_output_results(capsys, tmpdir): ...@@ -132,7 +132,7 @@ def test_output_results(capsys, tmpdir):
fmt = "csv" fmt = "csv"
quiet = True quiet = True
verbose = 0 verbose = 0
core.output_results(output_file, all_seq_digested, fmt, quiet, verbose) core.output_results(str(output_file), all_seq_digested, fmt, quiet, verbose)
out, err = capsys.readouterr() out, err = capsys.readouterr()
# Quiet # Quiet
assert out == "" assert out == ""
...@@ -152,7 +152,7 @@ def test_output_results(capsys, tmpdir): ...@@ -152,7 +152,7 @@ def test_output_results(capsys, tmpdir):
fmt = "csv" fmt = "csv"
quiet = False quiet = False
verbose = 3 verbose = 3
core.output_results(output_file, all_seq_digested, fmt, quiet, verbose) core.output_results(str(output_file), all_seq_digested, fmt, quiet, verbose)
out, err = capsys.readouterr() out, err = capsys.readouterr()
assert output_file.read() == "Original_header,No_peptide,Enzyme,Cleaving_"\ assert output_file.read() == "Original_header,No_peptide,Enzyme,Cleaving_"\
"pos,Peptide_size,Peptide_mass,pI,Sequence\n"\ "pos,Peptide_size,Peptide_mass,pI,Sequence\n"\
......
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