[med-svn] [Git][med-team/salmid][master] 3 commits: Add autopkgtests

[Shruti Sridhar (@shruti_sridhar)]

Shruti Sridhar pushed to branch master at Debian Med / salmid


Commits:
09292a69 by Shruti Sridhar at 2021-06-30T20:21:10+05:30
Add autopkgtests

- - - - -
f809a84a by Shruti Sridhar at 2021-06-30T20:21:43+05:30
Add test data and copyright

- - - - -
03154f1c by Shruti Sridhar at 2021-06-30T20:24:26+05:30
Update changelog

- - - - -


8 changed files:

- + debian/README.test
- debian/changelog
- debian/copyright
- + debian/docs
- + debian/examples
- + debian/tests/control
- + debian/tests/data/SRX11266476.fastq
- + debian/tests/run-unit-test


Changes:

=====================================
debian/README.test
=====================================
@@ -0,0 +1,16 @@
+Notes on how this package can be tested.
+────────────────────────────────────────
+
+This package can be tested by running the provided test:
+
+    sh run-unit-test
+
+in order to confirm its integrity.
+
+Notes on the files used for testing 
+────────────────────────────────────────
+Files: debian/tests/data/*
+Source: https://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?exp=SRX11266476&cmd=search&m=downloads&s=seq
+
+First 1000 lines of the FASTQ file was taken for the run-unit-test data. 
+


=====================================
debian/changelog
=====================================
@@ -1,3 +1,11 @@
+salmid (0.1.23-3) UNRELEASED; urgency=medium
+
+  * Team Upload. 
+  * Add autopkgtests
+  * Add test data and copyright
+
+ -- Shruti Sridhar <shruti.sridhar99 at gmail.com>  Wed, 30 Jun 2021 20:23:43 +0530
+
 salmid (0.1.23-2) unstable; urgency=medium
 
   * Standards-Version: 4.5.1 (routine-update)


=====================================
debian/copyright
=====================================
@@ -28,3 +28,7 @@ License: MIT
  LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
  OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
  SOFTWARE.
+
+Files: debian/tests/data/*
+Copyright: NCBI 
+License: public-domain
\ No newline at end of file


=====================================
debian/docs
=====================================
@@ -0,0 +1,2 @@
+README.md
+debian/README*


=====================================
debian/examples
=====================================
@@ -0,0 +1 @@
+debian/tests/data/*
\ No newline at end of file


=====================================
debian/tests/control
=====================================
@@ -0,0 +1,3 @@
+Tests: run-unit-test
+Depends: @
+Restrictions: allow-stderr


=====================================
debian/tests/data/SRX11266476.fastq
=====================================
The diff for this file was not included because it is too large.

=====================================
debian/tests/run-unit-test
=====================================
@@ -0,0 +1,17 @@
+#!/bin/bash
+set -e
+
+pkg=salmid
+
+export LC_ALL=C.UTF-8
+if [ "${AUTOPKGTEST_TMP}" = "" ] ; then
+  AUTOPKGTEST_TMP=$(mktemp -d /tmp/${pkg}-test.XXXXXX)
+  trap "rm -rf ${AUTOPKGTEST_TMP}" 0 INT QUIT ABRT PIPE TERM
+fi
+
+cp -a /usr/share/doc/${pkg}/examples/* "${AUTOPKGTEST_TMP}"
+
+cd "${AUTOPKGTEST_TMP}"
+
+SalmID -i SRX11266476.fastq > output 
+[ -s "output" ] && echo "PASS Test"



View it on GitLab: https://salsa.debian.org/med-team/salmid/-/compare/47f1197802497447f967e2d31559d28b2fc890b6...03154f1c3a4b8372e12903298a714160275438b1

-- 
View it on GitLab: https://salsa.debian.org/med-team/salmid/-/compare/47f1197802497447f967e2d31559d28b2fc890b6...03154f1c3a4b8372e12903298a714160275438b1
You're receiving this email because of your account on salsa.debian.org.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-commit/attachments/20210630/df81c868/attachment-0001.htm>