[med-svn] [SCM] perlprimer branch, master, updated. upstream/1.1.20-26-g1d674b8

[Charles Plessy]

The following commit has been merged in the master branch:
commit 91d7a00305490943605bbd1b97b304fab23e0fbe
Author: Charles Plessy <plessy at debian.org>
Date:   Sun Feb 27 13:20:34 2011 +0900

     # Material and instructions to test PerlPrimer.

diff --git a/debian/README.test b/debian/README.test
new file mode 100644
index 0000000..e58905f
--- /dev/null
+++ b/debian/README.test
@@ -0,0 +1,20 @@
+To test PerlPrimer
+──────────────────
+
+1) Start either by the command line (perlprimer), the Debian menu
+   (Applications/Science/Biology) or the FreeDesktop menu (Applications/Science,
+   Applications/Education or Applications/Biology).
+
+2) Retreive remotely a sequence from ENSEMBL (that breaks often because
+   of API changes). Click on the “e!” button, and select for instance
+   neurog1 from Danio_rerio (my pet gene). If that does not work, you can
+   start from the file test.ppr in this directory.
+
+3) Expand the search range by clicking on the “+10” button. Click on the “Find
+   primers” button. Note that on some small screens, the button may be out of the
+   desktop boundaries… Sequences should appear in the “Results” area.
+
+4) That is all for basic testing. PerlPrimer saves its configuration in
+   ‘~/.perlprimer’. Feel free to delete it if you are not a PerlPrimer user.
+
+ -- Charles Plessy <plessy at debian.org>  Sun, 27 Feb 2011 13:18:31 +0900
diff --git a/debian/test.ppr b/debian/test.ppr
new file mode 100644
index 0000000..f034db4
--- /dev/null
+++ b/debian/test.ppr
@@ -0,0 +1,16 @@
+nb = pd
+maxdiff = 3
+mintm = 57
+maxamp = 626
+maxrange = 750
+minwin = 20
+minrange = 124
+seq = gctcacacgagctgattgagggttaagagcaagacagacgcgtgccattatcttcaacacaaactatctgcaggattctgcaaaacctcaagcatctcccagcccaccaataaggttatcaacaATGGAGATCGTATACTCCGATATGGAAACCTCAAGCTGTGACTACTCCTTTTCGCACACGGATGATGAGGACTCGCGCAGCAGCCTCCACCCCGCGTCCCCCGCGTCCTCCTGCGGAAAACCACCTGCGTCTCCAGCCGGGCTCCAGCAGAAGAAAAGGCGCAGGGGGCGCGCGAGGAACGAAACCACTGTGCACGTCGTGAAGAAGAACCGCAGGCTGAAGGCCAACGACCGCGAGAGGAACAGGATGCACAACCTTAACGACGCATTGGATGCTTTGAGAAGCGTCCTGCCTGCGTTTCCTGACGACACAAAGCTGACCAAAATTGAGACTCTGCGCTTCGCTCACAACTACATCTGGGCACTTTCGGAGACCATCCGGATCGCAGACCAGAAGCAGGGCAAGTCAAGAGACGGTCCGCTGCTGCTCCCCGGACTAAGCTGCATGGCAGATGCACCCAGCCCCGGCAGTGACTCTTGCTCCTGGCCGTCGGGGGCATCCTCGTCGTCTTCATCACCGTCTTACTGCAACTCAGACCCGGGCAGCCCCGCAGCCATGGACGATTTTGGATACTTGCAAACCGACGTAGTGTACAGCTACCGCAACTTCGTGCCTAGCATCTATTAAtgtgactttaagcgttctcatgtcggtatagaatctccagaagtatgtagtagtgtaagaccactgttacttttctattagaaccaagagcacaacgttaggtattcactgtttgccttaatgacagtctgcaaatgagaatgttttatttttgtacgttttgatattgatgttgatgttgatgcttttttccaatacctttgcactttttgcattccttggagcgtgaccagaaccccgttagagaaaattataatttaaaaagcaaggcagattggcctttgctgtccaaggtgaaaagtcaatattacaatttgtagagcgataaagctgaaaaacgagcgtgaaaaatcagtttcaacgctgtgacaatagactgaaaggacaagacaaagatctggccttatgcattatgtattttgacccgaagaaaccctcatctgtccaactgatccgtacagttaaccagctctcatgacggctttcccaccacttttcttttttttatttattcaacctgttgcttctttatgctattgtatttttattgtatataaagagatttattctattatgtatttacctcagaatataaatctggtgcaaacatgtttgtacgaataaatatacgttttctactaaa
+gc_clamp = 1
+exclude_gc = 1
+maxwin = 24
+minamp = 626
+maxrange3p = 750
+maxtm = 63
+maxrange5p = 124
+[arrays]

-- 
Graphical design of primers for PCR