|
Last change
on this file was
19170,
checked in by westram, 2 years ago
|
- sina source
- unpack + remove tarball
- no longer ignore sina builddir.
|
-
Property svn:executable set to
*
|
|
File size:
901 bytes
|
| Line | |
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| 1 | #!/bin/bash |
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| 2 | source tests/test_helper.sh |
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| 3 | |
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| 4 | TEST_ARB=$TEST_ARGS |
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| 5 | maketmpdir T |
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| 6 | |
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| 7 | cp $TEST_ARB $T/ref.arb |
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| 8 | |
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| 9 | SINA="./src/sina" |
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| 10 | |
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| 11 | begin_test "PREP" |
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| 12 | capture_stdouterr "$SINA -i $T/ref.arb -o $T/extracted.fasta --select-step 1000 --prealigned" |
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| 13 | assert_exit_success |
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| 14 | assert_output_contains "align 12 sequences" |
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| 15 | capture_stdouterr "$SINA -i $T/ref.arb -o $T/extracted.arb --select-step 1000 --prealigned" |
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| 16 | assert_exit_success |
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| 17 | assert_output_contains "align 12 sequences" |
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| 18 | end_test |
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| 19 | |
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| 20 | begin_test "Search" |
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| 21 | capture_stdouterr "$SINA -i $T/extracted.fasta -o $T/results.fasta --db $T/ref.arb --prealigned --search -v" |
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| 22 | assert_output_count "nearest_slv: \w" -eq 12 |
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| 23 | end_test |
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| 24 | |
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| 25 | begin_test "Search - add relatives" |
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| 26 | capture_stdouterr "$SINA -i $T/extracted.fasta -o $T/results.fasta --db $T/ref.arb --prealigned --search -v --add-relatives 2" |
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| 27 | assert_output_count "nearest_slv: \w" -eq 12 |
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| 28 | assert_output_contains "24 relatives" |
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| 29 | end_test |
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| 30 | |
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