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