WSTester updated to work plus hopefully all the other changes that need to go into...

[jabaws.git] / binaries / src / ViennaRNA / man / Makefile.am

diff --git a/binaries/src/ViennaRNA/man/Makefile.am b/binaries/src/ViennaRNA/man/Makefile.am
new file mode 100644 (file)
index 0000000..08a08e7
--- /dev/null
+++ b/binaries/src/ViennaRNA/man/Makefile.am
@@ -0,0 +1,166 @@
+info_TEXINFOS = RNAlib.texinfo
+
+dist_man_MANS = RNA2Dfold.1 RNAaliduplex.1 RNAalifold.1 RNAcofold.1 RNAduplex.1 RNAeval.1\
+                RNAfold.1 RNAheat.1 RNAinverse.1 RNALalifold.1 RNALfold.1\
+                RNApaln.1 RNAparconv.1 RNAplfold.1 RNAplot.1 RNAsubopt.1 RNAup.1\
+                RNAPKplex.1 RNAsnoop.1 RNAplex.1 RNAdistance.1 RNApdist.1
+
+# remove all generated man pages
+maintainer-clean-local:
+       -rm -f $(dist_man_MANS)
+
+RNA2Dfold.1:  ../Progs/RNA2Dfold.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNA2Dfold.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNA2Dfold.ggo" > RNA2Dfold.1
+
+RNAaliduplex.1:  ../Progs/RNAaliduplex.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAaliduplex.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAaliduplex.ggo" > RNAaliduplex.1
+
+RNAalifold.1:  ../Progs/RNAalifold.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAalifold.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAalifold.ggo" > RNAalifold.1
+
+RNAcofold.1:  ../Progs/RNAcofold.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAcofold.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAcofold.ggo" > RNAcofold.1
+
+RNAduplex.1:  ../Progs/RNAduplex.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAduplex.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAduplex.ggo" > RNAduplex.1
+
+RNAeval.1:  ../Progs/RNAeval.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAeval.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAeval.ggo" > RNAeval.1
+
+RNAfold.1:  ../Progs/RNAfold.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAfold.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAfold.ggo" > RNAfold.1
+
+RNAheat.1:  ../Progs/RNAheat.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAheat.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAheat.ggo" > RNAheat.1
+
+RNAinverse.1:  ../Progs/RNAinverse.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAinverse.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAinverse.ggo" > RNAinverse.1
+
+RNALalifold.1:  ../Progs/RNALalifold.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAalifold.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNALalifold.ggo" > RNALalifold.1
+
+RNALfold.1:  ../Progs/RNALfold.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNALfold.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNALfold.ggo" > RNALfold.1
+
+RNApaln.1:  ../Progs/RNApaln.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNApaln.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNApaln.ggo" > RNApaln.1
+
+RNAparconv.1:  ../Progs/RNAparconv.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAparconv.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAparconv.ggo" > RNAparconv.1
+
+RNAplfold.1:  ../Progs/RNAplfold.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAplfold.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAplfold.ggo" > RNAplfold.1
+
+RNAplot.1:  ../Progs/RNAplot.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAplot.inc\
+                "./cmdlopt.sh ../Progs/RNAplot.ggo" > RNAplot.1
+
+RNAsubopt.1:  ../Progs/RNAsubopt.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAsubopt.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAsubopt.ggo" > RNAsubopt.1
+
+RNAup.1:  ../Progs/RNAup.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAup.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAup.ggo" > RNAup.1
+
+RNAplex.1:  ../Progs/RNAplex.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAplex.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAplex.ggo" > RNAplex.1
+
+RNAPKplex.1:  ../Progs/RNAPKplex.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAPKplex.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAPKplex.ggo" > RNAPKplex.1
+
+RNAsnoop.1:  ../Progs/RNAsnoop.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAsnoop.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNAsnoop.ggo" > RNAsnoop.1
+
+RNAdistance.1:  ../Progs/RNAdistance.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNAdistance.inc\
+                "./cmdlopt.sh ../Progs/RNAdistance.ggo" > RNAdistance.1
+
+RNApdist.1:  ../Progs/RNApdist.ggo
+       ./help2man -N --help-option=--detailed-help\
+                --opt-include=./include/ref_package.inc\
+                --opt-include=./include/RNApdist.inc\
+                --opt-include=./include/ref_energy_par.inc\
+                "./cmdlopt.sh ../Progs/RNApdist.ggo" > RNApdist.1
+
+
+
+