[med-svn] r5864 - in trunk/packages/vienna-rna/trunk/debian: . patches

[Alexandre Mestiashvili]

Author: malex-guest
Date: 2011-02-02 19:43:08 +0000 (Wed, 02 Feb 2011)
New Revision: 5864

Added:
   trunk/packages/vienna-rna/trunk/debian/patches/fix_cluster_manpages.patch
Modified:
   trunk/packages/vienna-rna/trunk/debian/patches/series
   trunk/packages/vienna-rna/trunk/debian/rules
   trunk/packages/vienna-rna/trunk/debian/vienna-rna.lintian-overrides
Log:
added 2 manual pages for Cluster (AnalyseDists.1 AnalyseSeqs.1 ) added lintian-ovverides for this 2 pages .


Added: trunk/packages/vienna-rna/trunk/debian/patches/fix_cluster_manpages.patch
===================================================================
--- trunk/packages/vienna-rna/trunk/debian/patches/fix_cluster_manpages.patch	                        (rev 0)
+++ trunk/packages/vienna-rna/trunk/debian/patches/fix_cluster_manpages.patch	2011-02-02 19:43:08 UTC (rev 5864)
@@ -0,0 +1,20 @@
+Index: vienna-rna-1.8.4/Cluster/AnalyseDists.1
+===================================================================
+--- vienna-rna-1.8.4.orig/Cluster/AnalyseDists.1	2011-02-02 20:19:51.000000000 +0100
++++ vienna-rna-1.8.4/Cluster/AnalyseDists.1	2011-02-02 20:21:22.000000000 +0100
+@@ -1,4 +1,4 @@
+-.TH ANALYSEDISTS l
++.TH "ANALYSEDISTS" "1"
+ .ER
+ .SH NAME
+ AnalyseDists \- Analyse a distance matrix 
+Index: vienna-rna-1.8.4/Cluster/AnalyseSeqs.1
+===================================================================
+--- vienna-rna-1.8.4.orig/Cluster/AnalyseSeqs.1	2011-02-02 20:21:35.000000000 +0100
++++ vienna-rna-1.8.4/Cluster/AnalyseSeqs.1	2011-02-02 20:21:51.000000000 +0100
+@@ -1,4 +1,4 @@
+-.TH ANALYSESEQS l
++.TH "ANALYSESEQS" "1"
+ .ER
+ .SH NAME
+ AnalyseSeqs \- Analyse a set of sequences of common length 

Modified: trunk/packages/vienna-rna/trunk/debian/patches/series
===================================================================
--- trunk/packages/vienna-rna/trunk/debian/patches/series	2011-02-02 16:39:52 UTC (rev 5863)
+++ trunk/packages/vienna-rna/trunk/debian/patches/series	2011-02-02 19:43:08 UTC (rev 5864)
@@ -1,3 +1,4 @@
+fix_cluster_manpages.patch
 lintian_messages01.patch
 fix_install_relative_path.patch
 readseq_exclude.patch

Modified: trunk/packages/vienna-rna/trunk/debian/rules
===================================================================
--- trunk/packages/vienna-rna/trunk/debian/rules	2011-02-02 16:39:52 UTC (rev 5863)
+++ trunk/packages/vienna-rna/trunk/debian/rules	2011-02-02 19:43:08 UTC (rev 5864)
@@ -31,31 +31,47 @@
 
 override_dh_auto_install:
 	# rename perl scripts to remove the *.pl extension and create manpage via perldoc
+#	for script in `ls Utils/*.pl` ; do \
+#	    newscript=`basename $${script} .pl` ; \
+#	    cp -a $${script} $(CURDIR)/debian/$(pkg)/usr/bin/$${newscript} ; \
+#	    perldoc -oman -F $${script} | \
+#		sed -e "s/$${newscript}\.pl/$${newscript}/g" \
+#		    -e "s/$${newscript} *- */$${newscript} \\- /g" \
+#		    -e "s/^[A-Z]/.SH &/" -e "1s/^.SH/.TH/" \
+#		    -e "s/\(.TH $${newscript}\)(1) *\(.*[^ ]\) *$${newscript}.*/\1 \"1\" \"\2\"/i" \
+#		    -e "s/^ *//" \
+#		    -e "s/.//g" \
+#		 > $(CURDIR)/debian/$(pkg)/usr/share/man/man1/$${newscript}.1 ; \
+#	    if [ ! -s $(CURDIR)/debian/$(pkg)/usr/share/man/man1/$${newscript}.1 ] ; then \
+#		rm -f $(CURDIR)/debian/$(pkg)/usr/share/man/man1/$${newscript}.1 ; \
+#	    fi ; \
+#	done
+
+# looks less complicated , but creates a bit bigger files ( includes some metaheader).
 	for script in `ls Utils/*.pl` ; do \
 	    newscript=`basename $${script} .pl` ; \
 	    cp -a $${script} $(CURDIR)/debian/$(pkg)/usr/bin/$${newscript} ; \
-	    perldoc -oman -F $${script} | \
+	    perldoc -onroff -F $${script} | \
 		sed -e "s/$${newscript}\.pl/$${newscript}/g" \
-		    -e "s/$${newscript} *- */$${newscript} \\- /g" \
-		    -e "s/^[A-Z]/.SH &/" -e "1s/^.SH/.TH/" \
-		    -e "s/\(.TH $${newscript}\)(1) *\(.*[^ ]\) *$${newscript}.*/\1 \"1\" \"\2\"/i" \
-		    -e "s/^ *//" \
-		    -e "s/.//g" \
 		 > $(CURDIR)/debian/$(pkg)/usr/share/man/man1/$${newscript}.1 ; \
 	    if [ ! -s $(CURDIR)/debian/$(pkg)/usr/share/man/man1/$${newscript}.1 ] ; then \
 		rm -f $(CURDIR)/debian/$(pkg)/usr/share/man/man1/$${newscript}.1 ; \
 	    fi ; \
 	done
+
 	# Create manpages which have proper name entries in --help output
 #	for bin in Kinfold/Kinfold ; do \
-#	    help2man --no-info $(CURDIR)/$${bin} > $(CURDIR)/debian/$(pkg)/usr/share/man/man1/`basename $${bin}`.1 ; \
+#	    help2man $(CURDIR)/$${bin} > $(CURDIR)/debian/$(pkg)/usr/share/man/man1/`basename $${bin}`.1 ; \
 #	done
 	# Create manpages which we need to provide proper name strings for individual manpages
-	help2man --name="aligning RNA secondary structures" --no-info \
+	help2man --name="aligning RNA secondary structures" \
                  $(CURDIR)/RNAforester/src/RNAforester > $(CURDIR)/debian/$(pkg)/usr/share/man/man1/RNAforester.1
-	help2man --name="Kinetic Folding Program for Nucleic Acids" --no-info \
+	help2man --name="Kinetic Folding Program for Nucleic Acids" \
                  $(CURDIR)/Kinfold/Kinfold > $(CURDIR)/debian/$(pkg)/usr/share/man/man1/Kinfold.1
+#   copy manual pages from cluster dir    
 
+	cp $(CURDIR)/Cluster/*.1 $(CURDIR)/debian/$(pkg)/usr/share/man/man1/
+    
 	cd man; $(MAKE) pdf; $(MAKE) html
 
 override_dh_compress:

Modified: trunk/packages/vienna-rna/trunk/debian/vienna-rna.lintian-overrides
===================================================================
--- trunk/packages/vienna-rna/trunk/debian/vienna-rna.lintian-overrides	2011-02-02 16:39:52 UTC (rev 5863)
+++ trunk/packages/vienna-rna/trunk/debian/vienna-rna.lintian-overrides	2011-02-02 19:43:08 UTC (rev 5864)
@@ -5,3 +5,5 @@
 
 # The line is not intended to be broken
 vienna-rna: manpage-has-errors-from-man usr/share/man/man1/RNAup.1.gz 140: warning [p 3, 1.0i]: can't break line
+vienna-rna: manpage-has-errors-from-man usr/share/man/man1/AnalyseDists.1.gz 2: warning: macro `ER' not defined
+vienna-rna: manpage-has-errors-from-man usr/share/man/man1/AnalyseSeqs.1.gz 2: warning: macro `ER' not defined