[med-svn] [Git][med-team/epcr][master] Rename gingo to the proper scientific name gingko

[Saira Hussain]

Saira Hussain pushed to branch master at Debian Med / epcr


Commits:
1656bb9c by Saira Hussain at 2019-06-27T10:20:04Z
Rename gingo to the proper scientific name gingko

- - - - -


3 changed files:

- debian/tests/data/gingo.fasta → debian/tests/data/gingko.fasta
- debian/tests/fetch_test_data.py
- debian/tests/run-unit-test


Changes:

=====================================
debian/tests/data/gingo.fasta → debian/tests/data/gingko.fasta
=====================================


=====================================
debian/tests/fetch_test_data.py
=====================================
@@ -6,7 +6,7 @@ from Bio import Entrez
 
 Entrez.email = 'unknown at debian.org'
 database = 'nucleotide'
-fn = 'data/gingo.fasta'
+fn = 'data/gingko.fasta'
 
 query = [
     '((chloroplast OR plastid) AND "complete genome" AND Embryophyta NOT (mi- tochondrion OR mitochondrial)) AND "Ginkgo biloba"'


=====================================
debian/tests/run-unit-test
=====================================
@@ -16,4 +16,7 @@ cd "${AUTOPKGTEST_TMP}"
 gunzip -r *
 
 set -x
-re-PCR -S ginko.hash -n 5 -g 0 -d 100-300 -o rbcL5.rePCR rbcL-primer.txt
+
+famap -b gingko.mmap -t N gingko.fasta
+fahash -b gingko.hash -w 3 -f 2 gingko.mmap
+re-PCR -S gingko.hash -n 5 -g 0 -d 100-300 -o rbcL5.rePCR rbcL-primer.txt



View it on GitLab: https://salsa.debian.org/med-team/epcr/commit/1656bb9c79685bc69a538bddf597dd4e1afc8674

-- 
View it on GitLab: https://salsa.debian.org/med-team/epcr/commit/1656bb9c79685bc69a538bddf597dd4e1afc8674
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