[med-svn] r1321 - in trunk/packages/pdb2pqr/branches/upstream/current: . pdb2pka pdb2pka/substruct propka
hanska-guest at alioth.debian.org
hanska-guest at alioth.debian.org
Wed Feb 6 13:26:02 UTC 2008
Author: hanska-guest
Date: 2008-02-06 13:26:02 +0000 (Wed, 06 Feb 2008)
New Revision: 1321
Added:
trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/
trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/Makefile
trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/substruct/
trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/substruct/Makefile
trunk/packages/pdb2pqr/branches/upstream/current/propka/
trunk/packages/pdb2pqr/branches/upstream/current/propka/Makefile
trunk/packages/pdb2pqr/branches/upstream/current/propka/config.log
trunk/packages/pdb2pqr/branches/upstream/current/propka/config.status
Log:
[svn-upgrade] Integrating new upstream version, pdb2pqr (1.3.0-1)
Added: trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/Makefile
===================================================================
--- trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/Makefile (rev 0)
+++ trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/Makefile 2008-02-06 13:26:02 UTC (rev 1321)
@@ -0,0 +1,520 @@
+# Makefile.in generated by automake 1.9.6 from Makefile.am.
+# pdb2pka/Makefile. Generated from Makefile.in by configure.
+
+# Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
+# 2003, 2004, 2005 Free Software Foundation, Inc.
+# This Makefile.in is free software; the Free Software Foundation
+# gives unlimited permission to copy and/or distribute it,
+# with or without modifications, as long as this notice is preserved.
+
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY, to the extent permitted by law; without
+# even the implied warranty of MERCHANTABILITY or FITNESS FOR A
+# PARTICULAR PURPOSE.
+
+
+
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Added: trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/substruct/Makefile
===================================================================
--- trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/substruct/Makefile (rev 0)
+++ trunk/packages/pdb2pqr/branches/upstream/current/pdb2pka/substruct/Makefile 2008-02-06 13:26:02 UTC (rev 1321)
@@ -0,0 +1,403 @@
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+
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+uninstall-info-am:
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+ETAGSFLAGS =
+
+tags: TAGS
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+ID: $(HEADERS) $(SOURCES) $(LISP) $(TAGS_FILES)
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+ unique=`for i in $$list; do \
+ if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+ done | \
+ $(AWK) ' { files[$$0] = 1; } \
+ END { for (i in files) print i; }'`; \
+ mkid -fID $$unique
+
+TAGS: $(HEADERS) $(SOURCES) $(TAGS_DEPENDENCIES) \
+ $(TAGS_FILES) $(LISP)
+ tags=; \
+ here=`pwd`; \
+ list='$(SOURCES) $(HEADERS) $(LISP) $(TAGS_FILES)'; \
+ unique=`for i in $$list; do \
+ if test -f "$$i"; then echo $$i; else echo $(srcdir)/$$i; fi; \
+ done | \
+ $(AWK) ' { files[$$0] = 1; } \
+ END { for (i in files) print i; }'`; \
+ test -z "$(ETAGS_ARGS)$$tags$$unique" \
+ || $(ETAGS) $(ETAGSFLAGS) $(AM_ETAGSFLAGS) $(ETAGS_ARGS) \
+ $$tags $$unique
+
+GTAGS:
+ here=`$(am__cd) $(top_builddir) && pwd` \
+ && cd $(top_srcdir) \
+ && gtags -i $(GTAGS_ARGS) $$here
+
+distclean-tags:
+ -rm -f TAGS ID GTAGS GRTAGS GSYMS GPATH
+DISTFILES = $(DIST_COMMON) $(DIST_SOURCES) $(TEXINFOS) $(EXTRA_DIST)
+
+top_distdir = .
+distdir = $(PACKAGE)-$(VERSION)
+
+am__remove_distdir = \
+ { test ! -d $(distdir) \
+ || { find $(distdir) -type d ! -perm -200 -exec chmod u+w {} ';' \
+ && rm -fr $(distdir); }; }
+
+GZIP_ENV = --best
+distcleancheck_listfiles = find . -type f -print
+
+distdir: $(DISTFILES)
+ $(am__remove_distdir)
+ mkdir $(distdir)
+ $(mkinstalldirs) $(distdir)/config
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+ dir=`echo "$$file" | sed -e 's,/[^/]*$$,,'`; \
+ if test "$$dir" != "$$file" && test "$$dir" != "."; then \
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+ $(mkinstalldirs) "$(distdir)$$dir"; \
+ else \
+ dir=''; \
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+ if test -d $$d/$$file; then \
+ if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
+ cp -pR $(srcdir)/$$file $(distdir)$$dir || exit 1; \
+ fi; \
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+ else \
+ test -f $(distdir)/$$file \
+ || cp -p $$d/$$file $(distdir)/$$file \
+ || exit 1; \
+ fi; \
+ done
+ -find $(distdir) -type d ! -perm -777 -exec chmod a+rwx {} \; -o \
+ ! -type d ! -perm -444 -links 1 -exec chmod a+r {} \; -o \
+ ! -type d ! -perm -400 -exec chmod a+r {} \; -o \
+ ! -type d ! -perm -444 -exec $(SHELL) $(install_sh) -c -m a+r {} {} \; \
+ || chmod -R a+r $(distdir)
+dist-gzip: distdir
+ $(AMTAR) chof - $(distdir) | GZIP=$(GZIP_ENV) gzip -c >$(distdir).tar.gz
+ $(am__remove_distdir)
+
+dist dist-all: distdir
+ $(AMTAR) chof - $(distdir) | GZIP=$(GZIP_ENV) gzip -c >$(distdir).tar.gz
+ $(am__remove_distdir)
+
+# This target untars the dist file and tries a VPATH configuration. Then
+# it guarantees that the distribution is self-contained by making another
+# tarfile.
+distcheck: dist
+ $(am__remove_distdir)
+ GZIP=$(GZIP_ENV) gunzip -c $(distdir).tar.gz | $(AMTAR) xf -
+ chmod -R a-w $(distdir); chmod a+w $(distdir)
+ mkdir $(distdir)/=build
+ mkdir $(distdir)/=inst
+ chmod a-w $(distdir)
+ dc_install_base=`$(am__cd) $(distdir)/=inst && pwd` \
+ && cd $(distdir)/=build \
+ && ../configure --srcdir=.. --prefix=$$dc_install_base \
+ $(DISTCHECK_CONFIGURE_FLAGS) \
+ && $(MAKE) $(AM_MAKEFLAGS) \
+ && $(MAKE) $(AM_MAKEFLAGS) dvi \
+ && $(MAKE) $(AM_MAKEFLAGS) check \
+ && $(MAKE) $(AM_MAKEFLAGS) install \
+ && $(MAKE) $(AM_MAKEFLAGS) installcheck \
+ && $(MAKE) $(AM_MAKEFLAGS) uninstall \
+ && (test `find $$dc_install_base -type f -print | wc -l` -le 1 \
+ || { echo "ERROR: files left after uninstall:" ; \
+ find $$dc_install_base -type f -print ; \
+ exit 1; } >&2 ) \
+ && $(MAKE) $(AM_MAKEFLAGS) dist-gzip \
+ && rm -f $(distdir).tar.gz \
+ && $(MAKE) $(AM_MAKEFLAGS) distcleancheck
+ $(am__remove_distdir)
+ @echo "$(distdir).tar.gz is ready for distribution" | \
+ sed 'h;s/./=/g;p;x;p;x'
+distcleancheck: distclean
+ if test '$(srcdir)' = . ; then \
+ echo "ERROR: distcleancheck can only run from a VPATH build" ; \
+ exit 1 ; \
+ fi
+ test `$(distcleancheck_listfiles) | wc -l` -eq 0 \
+ || { echo "ERROR: files left after distclean:" ; \
+ $(distcleancheck_listfiles) ; \
+ exit 1; } >&2
+check-am: all-am
+check: check-am
+all-am: Makefile $(PROGRAMS)
+
+installdirs:
+
+install: install-am
+install-exec: install-exec-am
+install-data: install-data-am
+uninstall: uninstall-am
+
+install-am: all-am
+ @$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am
+
+installcheck: installcheck-am
+install-strip:
+ $(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
+ INSTALL_STRIP_FLAG=-s \
+ `test -z '$(STRIP)' || \
+ echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
+mostlyclean-generic:
+
+clean-generic:
+ -test -z "$(CLEANFILES)" || rm -f $(CLEANFILES)
+
+distclean-generic:
+ -rm -f Makefile $(CONFIG_CLEAN_FILES)
+
+maintainer-clean-generic:
+ @echo "This command is intended for maintainers to use"
+ @echo "it deletes files that may require special tools to rebuild."
+clean: clean-am
+
+clean-am: clean-generic clean-local clean-noinstPROGRAMS mostlyclean-am
+
+distclean: distclean-am
+ -rm -f $(am__CONFIG_DISTCLEAN_FILES)
+distclean-am: clean-am distclean-compile distclean-generic \
+ distclean-local distclean-tags
+
+dvi: dvi-am
+
+dvi-am:
+
+info: info-am
+
+info-am:
+
+install-data-am:
+
+install-exec-am:
+
+install-info: install-info-am
+
+install-man:
+
+installcheck-am:
+
+maintainer-clean: maintainer-clean-am
+ -rm -f $(am__CONFIG_DISTCLEAN_FILES)
+ -rm -rf autom4te.cache
+maintainer-clean-am: distclean-am maintainer-clean-generic
+
+mostlyclean: mostlyclean-am
+
+mostlyclean-am: mostlyclean-compile mostlyclean-generic
+
+uninstall-am: uninstall-info-am
+
+.PHONY: GTAGS all all-am check check-am clean clean-generic clean-local \
+ clean-noinstPROGRAMS dist dist-all dist-gzip distcheck \
+ distclean distclean-compile distclean-generic distclean-local \
+ distclean-tags distcleancheck distdir dvi dvi-am info info-am \
+ install install-am install-data install-data-am install-exec \
+ install-exec-am install-info install-info-am install-man \
+ install-strip installcheck installcheck-am installdirs \
+ maintainer-clean maintainer-clean-generic mostlyclean \
+ mostlyclean-compile mostlyclean-generic tags uninstall \
+ uninstall-am uninstall-info-am
+
+
+distclean-local: clean-local
+clean-local: clean-ac
+clean-ac:
+ -rm -rf autom4te.cache
+# Tell versions [3.59,3.63) of GNU make to not export all variables.
+# Otherwise a system limit (for SysV at least) may be exceeded.
+.NOEXPORT:
Added: trunk/packages/pdb2pqr/branches/upstream/current/propka/config.log
===================================================================
--- trunk/packages/pdb2pqr/branches/upstream/current/propka/config.log (rev 0)
+++ trunk/packages/pdb2pqr/branches/upstream/current/propka/config.log 2008-02-06 13:26:02 UTC (rev 1321)
@@ -0,0 +1,421 @@
+This file contains any messages produced by compilers while
+running configure, to aid debugging if configure makes a mistake.
+
+It was created by PropKa configure 1.0.0, which was
+generated by GNU Autoconf 2.57. Invocation command line was
+
+ $ ./configure py_path=/usr/bin/python
+
+## --------- ##
+## Platform. ##
+## --------- ##
+
+hostname = pitaya.wustl.edu
+uname -m = i386
+uname -r = 8.11.1
+uname -s = Darwin
+uname -v = Darwin Kernel Version 8.11.1: Wed Oct 10 18:23:28 PDT 2007; root:xnu-792.25.20~1/RELEASE_I386
+
+/usr/bin/uname -p = i386
+/bin/uname -X = unknown
+
+/bin/arch = unknown
+/usr/bin/arch -k = unknown
+/usr/convex/getsysinfo = unknown
+hostinfo = Mach kernel version:
+ Darwin Kernel Version 8.11.1: Wed Oct 10 18:23:28 PDT 2007; root:xnu-792.25.20~1/RELEASE_I386
+Kernel configured for up to 4 processors.
+4 processors are physically available.
+4 processors are logically available.
+Processor type: i486 (Intel 80486)
+Processors active: 0 1 2 3
+Primary memory available: 4.00 gigabytes
+Default processor set: 88 tasks, 262 threads, 4 processors
+Load average: 1.05, Mach factor: 2.93
+/bin/machine = unknown
+/usr/bin/oslevel = unknown
+/bin/universe = unknown
+
+PATH: /usr/local/tinker/bin
+PATH: /usr/local/apbs-0.5.0/bin
+PATH: /usr/local/gromacs-3.3.1/bin
+PATH: /usr/local/amber9/exe
+PATH: /usr/local/mpich2-1.0.5p4/bin
+PATH: /sw/bin
+PATH: /sw/sbin
+PATH: /usr/local/bin
+PATH: /Users/yhuang/bin
+PATH: /bin
+PATH: /sbin
+PATH: /usr/bin
+PATH: /usr/sbin
+PATH: /usr/X11R6/bin
+PATH: /sw/lib/pymol-py24/bin
+
+
+## ----------- ##
+## Core tests. ##
+## ----------- ##
+
+configure:1291: checking build system type
+configure:1309: result: i386-apple-darwin8.11.1
+configure:1317: checking host system type
+configure:1331: result: i386-apple-darwin8.11.1
+configure:1339: checking target system type
+configure:1353: result: i386-apple-darwin8.11.1
+configure:1381: checking for a BSD-compatible install
+configure:1435: result: /usr/bin/install -c
+configure:1446: checking whether build environment is sane
+configure:1489: result: yes
+configure:1522: checking for gawk
+configure:1538: found /sw/bin/gawk
+configure:1548: result: gawk
+configure:1558: checking whether make sets $(MAKE)
+configure:1578: result: yes
+configure:1735: checking for python
+configure:1765: result: /usr/bin/python
+configure:1829: checking for gcc
+configure:1845: found /usr/bin/gcc
+configure:1855: result: gcc
+configure:2099: checking for C compiler version
+configure:2102: gcc --version </dev/null >&5
+i686-apple-darwin8-gcc-4.0.1 (GCC) 4.0.1 (Apple Computer, Inc. build 5367)
+Copyright (C) 2005 Free Software Foundation, Inc.
+This is free software; see the source for copying conditions. There is NO
+warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+
+configure:2105: $? = 0
+configure:2107: gcc -v </dev/null >&5
+Using built-in specs.
+Target: i686-apple-darwin8
+Configured with: /private/var/tmp/gcc/gcc-5367.obj~1/src/configure --disable-checking -enable-werror --prefix=/usr --mandir=/share/man --enable-languages=c,objc,c++,obj-c++ --program-transform-name=/^[cg][^.-]*$/s/$/-4.0/ --with-gxx-include-dir=/include/c++/4.0.0 --with-slibdir=/usr/lib --build=powerpc-apple-darwin8 --with-arch=nocona --with-tune=generic --program-prefix= --host=i686-apple-darwin8 --target=i686-apple-darwin8
+Thread model: posix
+gcc version 4.0.1 (Apple Computer, Inc. build 5367)
+configure:2110: $? = 0
+configure:2112: gcc -V </dev/null >&5
+gcc: argument to `-V' is missing
+configure:2115: $? = 1
+configure:2139: checking for C compiler default output
+configure:2142: gcc conftest.c >&5
+configure:2145: $? = 0
+configure:2191: result: a.out
+configure:2196: checking whether the C compiler works
+configure:2202: ./a.out
+configure:2205: $? = 0
+configure:2222: result: yes
+configure:2229: checking whether we are cross compiling
+configure:2231: result: no
+configure:2234: checking for suffix of executables
+configure:2236: gcc -o conftest conftest.c >&5
+configure:2239: $? = 0
+configure:2264: result:
+configure:2270: checking for suffix of object files
+configure:2292: gcc -c conftest.c >&5
+configure:2295: $? = 0
+configure:2317: result: o
+configure:2321: checking whether we are using the GNU C compiler
+configure:2346: gcc -c conftest.c >&5
+configure:2349: $? = 0
+configure:2352: test -s conftest.o
+configure:2355: $? = 0
+configure:2368: result: yes
+configure:2374: checking whether gcc accepts -g
+configure:2396: gcc -c -g conftest.c >&5
+configure:2399: $? = 0
+configure:2402: test -s conftest.o
+configure:2405: $? = 0
+configure:2416: result: yes
+configure:2433: checking for gcc option to accept ANSI C
+configure:2494: gcc -c -g -O2 conftest.c >&5
+configure:2497: $? = 0
+configure:2500: test -s conftest.o
+configure:2503: $? = 0
+configure:2521: result: none needed
+configure:2539: gcc -c -g -O2 conftest.c >&5
+conftest.c:2: error: parse error before 'me'
+configure:2542: $? = 1
+configure: failed program was:
+| #ifndef __cplusplus
+| choke me
+| #endif
+configure:2670: checking for style of include used by make
+configure:2698: result: GNU
+configure:2726: checking dependency style of gcc
+configure:2788: result: none
+configure:2844: checking for g77
+configure:2873: result: no
+configure:2844: checking for f77
+configure:2873: result: no
+configure:2844: checking for xlf
+configure:2873: result: no
+configure:2844: checking for frt
+configure:2873: result: no
+configure:2844: checking for pgf77
+configure:2873: result: no
+configure:2844: checking for fl32
+configure:2873: result: no
+configure:2844: checking for af77
+configure:2873: result: no
+configure:2844: checking for fort77
+configure:2873: result: no
+configure:2844: checking for f90
+configure:2873: result: no
+configure:2844: checking for xlf90
+configure:2873: result: no
+configure:2844: checking for pgf90
+configure:2873: result: no
+configure:2844: checking for epcf90
+configure:2873: result: no
+configure:2844: checking for f95
+configure:2873: result: no
+configure:2844: checking for fort
+configure:2873: result: no
+configure:2844: checking for xlf95
+configure:2873: result: no
+configure:2844: checking for lf95
+configure:2873: result: no
+configure:2844: checking for g95
+configure:2860: found /sw/bin/g95
+configure:2870: result: g95
+configure:2885: checking for Fortran 77 compiler version
+configure:2888: g95 --version </dev/null >&5
+G95 (GCC 4.0.3 (g95 0.90!) Mar 13 2007)
+Copyright (C) 2002-2005 Free Software Foundation, Inc.
+
+G95 comes with NO WARRANTY, to the extent permitted by law.
+You may redistribute copies of G95
+under the terms of the GNU General Public License.
+For more information about these matters, see the file named COPYING
+configure:2891: $? = 0
+configure:2893: g95 -v </dev/null >&5
+Using built-in specs.
+Target:
+Configured with: ../configure --prefix=/sw/lib/gcc-lib/i386-apple-darwin8/4.0.3 --enable-languages=c --with-as=/sw/lib/odcctools590/bin/as --with-ld=/sw/lib/odcctools590/bin/ld --with-nm=/sw/lib/odcctools590/bin/nm --with-included-gettext
+Thread model: posix
+gcc version 4.0.3 (g95 0.90!) Mar 13 2007
+configure:2896: $? = 0
+configure:2898: g95 -V </dev/null >&5
+g95: '-V' option must have argument
+configure:2901: $? = 1
+configure:2908: checking whether we are using the GNU Fortran 77 compiler
+configure:2922: g95 -c conftest.F >&5
+configure:2925: $? = 0
+configure:2928: test -s conftest.o
+configure:2931: $? = 0
+configure:2944: result: yes
+configure:2951: checking whether g95 accepts -g
+configure:2963: g95 -c -g conftest.f >&5
+configure:2966: $? = 0
+configure:2969: test -s conftest.o
+configure:2972: $? = 0
+configure:2984: result: yes
+configure:3054: checking how to run the C preprocessor
+configure:3090: gcc -E conftest.c
+configure:3096: $? = 0
+configure:3128: gcc -E conftest.c
+configure:3129:28: error: ac_nonexistent.h: No such file or directory
+configure:3134: $? = 1
+configure: failed program was:
+| #line 3119 "configure"
+| /* confdefs.h. */
+|
+| #define PACKAGE_NAME "PropKa"
+| #define PACKAGE_TARNAME "propka"
+| #define PACKAGE_VERSION "1.0.0"
+| #define PACKAGE_STRING "PropKa 1.0.0"
+| #define PACKAGE_BUGREPORT "Jan-Jensen at uiowa.edu"
+| #define PACKAGE "PropKa"
+| #define VERSION "1.0.0"
+| /* end confdefs.h. */
+| #include <ac_nonexistent.h>
+configure:3172: result: gcc -E
+configure:3197: gcc -E conftest.c
+configure:3203: $? = 0
+configure:3235: gcc -E conftest.c
+configure:3236:28: error: ac_nonexistent.h: No such file or directory
+configure:3241: $? = 1
+configure: failed program was:
+| #line 3226 "configure"
+| /* confdefs.h. */
+|
+| #define PACKAGE_NAME "PropKa"
+| #define PACKAGE_TARNAME "propka"
+| #define PACKAGE_VERSION "1.0.0"
+| #define PACKAGE_STRING "PropKa 1.0.0"
+| #define PACKAGE_BUGREPORT "Jan-Jensen at uiowa.edu"
+| #define PACKAGE "PropKa"
+| #define VERSION "1.0.0"
+| /* end confdefs.h. */
+| #include <ac_nonexistent.h>
+configure:3284: checking for python include directory
+configure:3290: result: -I/System/Library/Frameworks/Python.framework/Versions/2.3/include/python2.3
+configure:3464: creating ./config.status
+
+## ---------------------- ##
+## Running config.status. ##
+## ---------------------- ##
+
+This file was extended by PropKa config.status 1.0.0, which was
+generated by GNU Autoconf 2.57. Invocation command line was
+
+ CONFIG_FILES =
+ CONFIG_HEADERS =
+ CONFIG_LINKS =
+ CONFIG_COMMANDS =
+ $ ./config.status
+
+on pitaya.wustl.edu
+
+config.status:660: creating Makefile
+config.status:785: executing depfiles commands
+
+## ---------------- ##
+## Cache variables. ##
+## ---------------- ##
+
+ac_cv_build=i386-apple-darwin8.11.1
+ac_cv_build_alias=i386-apple-darwin8.11.1
+ac_cv_c_compiler_gnu=yes
+ac_cv_env_CC_set=
+ac_cv_env_CC_value=
+ac_cv_env_CFLAGS_set=
+ac_cv_env_CFLAGS_value=
+ac_cv_env_CPPFLAGS_set=
+ac_cv_env_CPPFLAGS_value=
+ac_cv_env_CPP_set=
+ac_cv_env_CPP_value=
+ac_cv_env_F77_set=
+ac_cv_env_F77_value=
+ac_cv_env_FFLAGS_set=
+ac_cv_env_FFLAGS_value=
+ac_cv_env_LDFLAGS_set=
+ac_cv_env_LDFLAGS_value=
+ac_cv_env_build_alias_set=
+ac_cv_env_build_alias_value=
+ac_cv_env_host_alias_set=
+ac_cv_env_host_alias_value=
+ac_cv_env_target_alias_set=
+ac_cv_env_target_alias_value=
+ac_cv_exeext=
+ac_cv_f77_compiler_gnu=yes
+ac_cv_host=i386-apple-darwin8.11.1
+ac_cv_host_alias=i386-apple-darwin8.11.1
+ac_cv_objext=o
+ac_cv_path_INTLTOOL_PERL=/usr/bin/perl
+ac_cv_path_install='/usr/bin/install -c'
+ac_cv_path_py_path=/usr/bin/python
+ac_cv_prog_AWK=gawk
+ac_cv_prog_CPP='gcc -E'
+ac_cv_prog_ac_ct_CC=gcc
+ac_cv_prog_ac_ct_F77=g95
+ac_cv_prog_cc_g=yes
+ac_cv_prog_cc_stdc=
+ac_cv_prog_f77_g=yes
+ac_cv_prog_make_make_set=yes
+ac_cv_target=i386-apple-darwin8.11.1
+ac_cv_target_alias=i386-apple-darwin8.11.1
+am_cv_CC_dependencies_compiler_type=none
+
+## ----------------- ##
+## Output variables. ##
+## ----------------- ##
+
+ACLOCAL=':'
+AMDEPBACKSLASH='\'
+AMDEP_FALSE='#'
+AMDEP_TRUE=''
+AMTAR='${SHELL} /Users/yhuang/Desktop/pdb2pqr-1.3.0/propka/config/missing --run tar'
+AUTOCONF=':'
+AUTOHEADER=':'
+AUTOMAKE=':'
+AWK='gawk'
+CC='gcc'
+CCDEPMODE='depmode=none'
+CFLAGS='-g -O2'
+CPP='gcc -E'
+CPPFLAGS=''
+DEFS='-DPACKAGE_NAME=\"PropKa\" -DPACKAGE_TARNAME=\"propka\" -DPACKAGE_VERSION=\"1.0.0\" -DPACKAGE_STRING=\"PropKa\ 1.0.0\" -DPACKAGE_BUGREPORT=\"Jan-Jensen at uiowa.edu\" -DPACKAGE=\"PropKa\" -DVERSION=\"1.0.0\" '
+DEPDIR='.deps'
+ECHO_C=''
+ECHO_N='-n'
+ECHO_T=''
+EXEEXT=''
+F77='g95'
+FFLAGS=' -g -O2'
+INSTALL_DATA='${INSTALL} -m 644'
+INSTALL_PROGRAM='${INSTALL}'
+INSTALL_SCRIPT='${INSTALL}'
+INSTALL_STRIP_PROGRAM='${SHELL} $(install_sh) -c -s'
+LDFLAGS=''
+LIBOBJS=''
+LIBS=''
+LTLIBOBJS=''
+MAKEINFO='${SHELL} /Users/yhuang/Desktop/pdb2pqr-1.3.0/propka/config/missing --run makeinfo'
+OBJEXT='o'
+PACKAGE='PropKa'
+PACKAGE_BUGREPORT='Jan-Jensen at uiowa.edu'
+PACKAGE_NAME='PropKa'
+PACKAGE_STRING='PropKa 1.0.0'
+PACKAGE_TARNAME='propka'
+PACKAGE_VERSION='1.0.0'
+PATH_SEPARATOR=':'
+PROPKA_VERSION='1:0:0'
+PY_CFLAGS='-I/System/Library/Frameworks/Python.framework/Versions/2.3/include/python2.3'
+PY_FLAGS=''
+PY_LDFLAGS='-Wl,-framework -Wl,Python -bundle'
+PY_SHARED=''
+SET_MAKE=''
+SHELL='/bin/sh'
+STRIP=''
+VERSION='1.0.0'
+ac_ct_CC='gcc'
+ac_ct_F77='g95'
+ac_ct_STRIP=''
+am__include='include'
+am__quote=''
+bindir='${exec_prefix}/bin'
+build='i386-apple-darwin8.11.1'
+build_alias=''
+build_cpu='i386'
+build_os='darwin8.11.1'
+build_vendor='apple'
+datadir='${prefix}/share'
+exec_prefix='${prefix}'
+host='i386-apple-darwin8.11.1'
+host_alias=''
+host_cpu='i386'
+host_os='darwin8.11.1'
+host_vendor='apple'
+includedir='${prefix}/include'
+infodir='${prefix}/info'
+install_sh='/Users/yhuang/Desktop/pdb2pqr-1.3.0/propka/config/install-sh'
+libdir='${exec_prefix}/lib'
+libexecdir='${exec_prefix}/libexec'
+localstatedir='${prefix}/var'
+mandir='${prefix}/man'
+oldincludedir='/usr/include'
+prefix='/Users/yhuang'
+program_transform_name='s,x,x,'
+py_path='/usr/bin/python'
+sbindir='${exec_prefix}/sbin'
+sharedstatedir='${prefix}/com'
+sysconfdir='${prefix}/etc'
+target='i386-apple-darwin8.11.1'
+target_alias=''
+target_cpu='i386'
+target_os='darwin8.11.1'
+target_vendor='apple'
+
+## ----------- ##
+## confdefs.h. ##
+## ----------- ##
+
+#define PACKAGE "PropKa"
+#define PACKAGE_BUGREPORT "Jan-Jensen at uiowa.edu"
+#define PACKAGE_NAME "PropKa"
+#define PACKAGE_STRING "PropKa 1.0.0"
+#define PACKAGE_TARNAME "propka"
+#define PACKAGE_VERSION "1.0.0"
+#define VERSION "1.0.0"
+
+configure: exit 0
Added: trunk/packages/pdb2pqr/branches/upstream/current/propka/config.status
===================================================================
--- trunk/packages/pdb2pqr/branches/upstream/current/propka/config.status (rev 0)
+++ trunk/packages/pdb2pqr/branches/upstream/current/propka/config.status 2008-02-06 13:26:02 UTC (rev 1321)
@@ -0,0 +1,882 @@
+#! /bin/sh
+# Generated by configure.
+# Run this file to recreate the current configuration.
+# Compiler output produced by configure, useful for debugging
+# configure, is in config.log if it exists.
+
+debug=false
+ac_cs_recheck=false
+ac_cs_silent=false
+SHELL=${CONFIG_SHELL-/bin/sh}
+## --------------------- ##
+## M4sh Initialization. ##
+## --------------------- ##
+
+# Be Bourne compatible
+if test -n "${ZSH_VERSION+set}" && (emulate sh) >/dev/null 2>&1; then
+ emulate sh
+ NULLCMD=:
+ # Zsh 3.x and 4.x performs word splitting on ${1+"$@"}, which
+ # is contrary to our usage. Disable this feature.
+ alias -g '${1+"$@"}'='"$@"'
+elif test -n "${BASH_VERSION+set}" && (set -o posix) >/dev/null 2>&1; then
+ set -o posix
+fi
+
+# Support unset when possible.
+if (FOO=FOO; unset FOO) >/dev/null 2>&1; then
+ as_unset=unset
+else
+ as_unset=false
+fi
+
+
+# Work around bugs in pre-3.0 UWIN ksh.
+$as_unset ENV MAIL MAILPATH
+PS1='$ '
+PS2='> '
+PS4='+ '
+
+# NLS nuisances.
+for as_var in \
+ LANG LANGUAGE LC_ADDRESS LC_ALL LC_COLLATE LC_CTYPE LC_IDENTIFICATION \
+ LC_MEASUREMENT LC_MESSAGES LC_MONETARY LC_NAME LC_NUMERIC LC_PAPER \
+ LC_TELEPHONE LC_TIME
+do
+ if (set +x; test -n "`(eval $as_var=C; export $as_var) 2>&1`"); then
+ eval $as_var=C; export $as_var
+ else
+ $as_unset $as_var
+ fi
+done
+
+# Required to use basename.
+if expr a : '\(a\)' >/dev/null 2>&1; then
+ as_expr=expr
+else
+ as_expr=false
+fi
+
+if (basename /) >/dev/null 2>&1 && test "X`basename / 2>&1`" = "X/"; then
+ as_basename=basename
+else
+ as_basename=false
+fi
+
+
+# Name of the executable.
+as_me=`$as_basename "$0" ||
+$as_expr X/"$0" : '.*/\([^/][^/]*\)/*$' \| \
+ X"$0" : 'X\(//\)$' \| \
+ X"$0" : 'X\(/\)$' \| \
+ . : '\(.\)' 2>/dev/null ||
+echo X/"$0" |
+ sed '/^.*\/\([^/][^/]*\)\/*$/{ s//\1/; q; }
+ /^X\/\(\/\/\)$/{ s//\1/; q; }
+ /^X\/\(\/\).*/{ s//\1/; q; }
+ s/.*/./; q'`
+
+
+# PATH needs CR, and LINENO needs CR and PATH.
+# Avoid depending upon Character Ranges.
+as_cr_letters='abcdefghijklmnopqrstuvwxyz'
+as_cr_LETTERS='ABCDEFGHIJKLMNOPQRSTUVWXYZ'
+as_cr_Letters=$as_cr_letters$as_cr_LETTERS
+as_cr_digits='0123456789'
+as_cr_alnum=$as_cr_Letters$as_cr_digits
+
+# The user is always right.
+if test "${PATH_SEPARATOR+set}" != set; then
+ echo "#! /bin/sh" >conf$$.sh
+ echo "exit 0" >>conf$$.sh
+ chmod +x conf$$.sh
+ if (PATH="/nonexistent;."; conf$$.sh) >/dev/null 2>&1; then
+ PATH_SEPARATOR=';'
+ else
+ PATH_SEPARATOR=:
+ fi
+ rm -f conf$$.sh
+fi
+
+
+ as_lineno_1=$LINENO
+ as_lineno_2=$LINENO
+ as_lineno_3=`(expr $as_lineno_1 + 1) 2>/dev/null`
+ test "x$as_lineno_1" != "x$as_lineno_2" &&
+ test "x$as_lineno_3" = "x$as_lineno_2" || {
+ # Find who we are. Look in the path if we contain no path at all
+ # relative or not.
+ case $0 in
+ *[\\/]* ) as_myself=$0 ;;
+ *) as_save_IFS=$IFS; IFS=$PATH_SEPARATOR
+for as_dir in $PATH
+do
+ IFS=$as_save_IFS
+ test -z "$as_dir" && as_dir=.
+ test -r "$as_dir/$0" && as_myself=$as_dir/$0 && break
+done
+
+ ;;
+ esac
+ # We did not find ourselves, most probably we were run as `sh COMMAND'
+ # in which case we are not to be found in the path.
+ if test "x$as_myself" = x; then
+ as_myself=$0
+ fi
+ if test ! -f "$as_myself"; then
+ { { echo "$as_me:$LINENO: error: cannot find myself; rerun with an absolute path" >&5
+echo "$as_me: error: cannot find myself; rerun with an absolute path" >&2;}
+ { (exit 1); exit 1; }; }
+ fi
+ case $CONFIG_SHELL in
+ '')
+ as_save_IFS=$IFS; IFS=$PATH_SEPARATOR
+for as_dir in /bin$PATH_SEPARATOR/usr/bin$PATH_SEPARATOR$PATH
+do
+ IFS=$as_save_IFS
+ test -z "$as_dir" && as_dir=.
+ for as_base in sh bash ksh sh5; do
+ case $as_dir in
+ /*)
+ if ("$as_dir/$as_base" -c '
+ as_lineno_1=$LINENO
+ as_lineno_2=$LINENO
+ as_lineno_3=`(expr $as_lineno_1 + 1) 2>/dev/null`
+ test "x$as_lineno_1" != "x$as_lineno_2" &&
+ test "x$as_lineno_3" = "x$as_lineno_2" ') 2>/dev/null; then
+ $as_unset BASH_ENV || test "${BASH_ENV+set}" != set || { BASH_ENV=; export BASH_ENV; }
+ $as_unset ENV || test "${ENV+set}" != set || { ENV=; export ENV; }
+ CONFIG_SHELL=$as_dir/$as_base
+ export CONFIG_SHELL
+ exec "$CONFIG_SHELL" "$0" ${1+"$@"}
+ fi;;
+ esac
+ done
+done
+;;
+ esac
+
+ # Create $as_me.lineno as a copy of $as_myself, but with $LINENO
+ # uniformly replaced by the line number. The first 'sed' inserts a
+ # line-number line before each line; the second 'sed' does the real
+ # work. The second script uses 'N' to pair each line-number line
+ # with the numbered line, and appends trailing '-' during
+ # substitution so that $LINENO is not a special case at line end.
+ # (Raja R Harinath suggested sed '=', and Paul Eggert wrote the
+ # second 'sed' script. Blame Lee E. McMahon for sed's syntax. :-)
+ sed '=' <$as_myself |
+ sed '
+ N
+ s,$,-,
+ : loop
+ s,^\(['$as_cr_digits']*\)\(.*\)[$]LINENO\([^'$as_cr_alnum'_]\),\1\2\1\3,
+ t loop
+ s,-$,,
+ s,^['$as_cr_digits']*\n,,
+ ' >$as_me.lineno &&
+ chmod +x $as_me.lineno ||
+ { { echo "$as_me:$LINENO: error: cannot create $as_me.lineno; rerun with a POSIX shell" >&5
+echo "$as_me: error: cannot create $as_me.lineno; rerun with a POSIX shell" >&2;}
+ { (exit 1); exit 1; }; }
+
+ # Don't try to exec as it changes $[0], causing all sort of problems
+ # (the dirname of $[0] is not the place where we might find the
+ # original and so on. Autoconf is especially sensible to this).
+ . ./$as_me.lineno
+ # Exit status is that of the last command.
+ exit
+}
+
+
+case `echo "testing\c"; echo 1,2,3`,`echo -n testing; echo 1,2,3` in
+ *c*,-n*) ECHO_N= ECHO_C='
+' ECHO_T=' ' ;;
+ *c*,* ) ECHO_N=-n ECHO_C= ECHO_T= ;;
+ *) ECHO_N= ECHO_C='\c' ECHO_T= ;;
+esac
+
+if expr a : '\(a\)' >/dev/null 2>&1; then
+ as_expr=expr
+else
+ as_expr=false
+fi
+
+rm -f conf$$ conf$$.exe conf$$.file
+echo >conf$$.file
+if ln -s conf$$.file conf$$ 2>/dev/null; then
+ # We could just check for DJGPP; but this test a) works b) is more generic
+ # and c) will remain valid once DJGPP supports symlinks (DJGPP 2.04).
+ if test -f conf$$.exe; then
+ # Don't use ln at all; we don't have any links
+ as_ln_s='cp -p'
+ else
+ as_ln_s='ln -s'
+ fi
+elif ln conf$$.file conf$$ 2>/dev/null; then
+ as_ln_s=ln
+else
+ as_ln_s='cp -p'
+fi
+rm -f conf$$ conf$$.exe conf$$.file
+
+if mkdir -p . 2>/dev/null; then
+ as_mkdir_p=:
+else
+ as_mkdir_p=false
+fi
+
+as_executable_p="test -f"
+
+# Sed expression to map a string onto a valid CPP name.
+as_tr_cpp="sed y%*$as_cr_letters%P$as_cr_LETTERS%;s%[^_$as_cr_alnum]%_%g"
+
+# Sed expression to map a string onto a valid variable name.
+as_tr_sh="sed y%*+%pp%;s%[^_$as_cr_alnum]%_%g"
+
+
+# IFS
+# We need space, tab and new line, in precisely that order.
+as_nl='
+'
+IFS=" $as_nl"
+
+# CDPATH.
+$as_unset CDPATH
+
+exec 6>&1
+
+# Open the log real soon, to keep \$[0] and so on meaningful, and to
+# report actual input values of CONFIG_FILES etc. instead of their
+# values after options handling. Logging --version etc. is OK.
+exec 5>>config.log
+{
+ echo
+ sed 'h;s/./-/g;s/^.../## /;s/...$/ ##/;p;x;p;x' <<_ASBOX
+## Running $as_me. ##
+_ASBOX
+} >&5
+cat >&5 <<_CSEOF
+
+This file was extended by PropKa $as_me 1.0.0, which was
+generated by GNU Autoconf 2.57. Invocation command line was
+
+ CONFIG_FILES = $CONFIG_FILES
+ CONFIG_HEADERS = $CONFIG_HEADERS
+ CONFIG_LINKS = $CONFIG_LINKS
+ CONFIG_COMMANDS = $CONFIG_COMMANDS
+ $ $0 $@
+
+_CSEOF
+echo "on `(hostname || uname -n) 2>/dev/null | sed 1q`" >&5
+echo >&5
+config_files=" Makefile"
+config_commands=" depfiles"
+
+ac_cs_usage="\
+\`$as_me' instantiates files from templates according to the
+current configuration.
+
+Usage: $0 [OPTIONS] [FILE]...
+
+ -h, --help print this help, then exit
+ -V, --version print version number, then exit
+ -q, --quiet do not print progress messages
+ -d, --debug don't remove temporary files
+ --recheck update $as_me by reconfiguring in the same conditions
+ --file=FILE[:TEMPLATE]
+ instantiate the configuration file FILE
+
+Configuration files:
+$config_files
+
+Configuration commands:
+$config_commands
+
+Report bugs to <bug-autoconf at gnu.org>."
+ac_cs_version="\
+PropKa config.status 1.0.0
+configured by ./configure, generated by GNU Autoconf 2.57,
+ with options \"'py_path=/usr/bin/python'\"
+
+Copyright 1992, 1993, 1994, 1995, 1996, 1998, 1999, 2000, 2001
+Free Software Foundation, Inc.
+This config.status script is free software; the Free Software Foundation
+gives unlimited permission to copy, distribute and modify it."
+srcdir=.
+INSTALL="/usr/bin/install -c"
+# If no file are specified by the user, then we need to provide default
+# value. By we need to know if files were specified by the user.
+ac_need_defaults=:
+while test $# != 0
+do
+ case $1 in
+ --*=*)
+ ac_option=`expr "x$1" : 'x\([^=]*\)='`
+ ac_optarg=`expr "x$1" : 'x[^=]*=\(.*\)'`
+ ac_shift=:
+ ;;
+ -*)
+ ac_option=$1
+ ac_optarg=$2
+ ac_shift=shift
+ ;;
+ *) # This is not an option, so the user has probably given explicit
+ # arguments.
+ ac_option=$1
+ ac_need_defaults=false;;
+ esac
+
+ case $ac_option in
+ # Handling of the options.
+ -recheck | --recheck | --rechec | --reche | --rech | --rec | --re | --r)
+ ac_cs_recheck=: ;;
+ --version | --vers* | -V )
+ echo "$ac_cs_version"; exit 0 ;;
+ --he | --h)
+ # Conflict between --help and --header
+ { { echo "$as_me:$LINENO: error: ambiguous option: $1
+Try \`$0 --help' for more information." >&5
+echo "$as_me: error: ambiguous option: $1
+Try \`$0 --help' for more information." >&2;}
+ { (exit 1); exit 1; }; };;
+ --help | --hel | -h )
+ echo "$ac_cs_usage"; exit 0 ;;
+ --debug | --d* | -d )
+ debug=: ;;
+ --file | --fil | --fi | --f )
+ $ac_shift
+ CONFIG_FILES="$CONFIG_FILES $ac_optarg"
+ ac_need_defaults=false;;
+ --header | --heade | --head | --hea )
+ $ac_shift
+ CONFIG_HEADERS="$CONFIG_HEADERS $ac_optarg"
+ ac_need_defaults=false;;
+ -q | -quiet | --quiet | --quie | --qui | --qu | --q \
+ | -silent | --silent | --silen | --sile | --sil | --si | --s)
+ ac_cs_silent=: ;;
+
+ # This is an error.
+ -*) { { echo "$as_me:$LINENO: error: unrecognized option: $1
+Try \`$0 --help' for more information." >&5
+echo "$as_me: error: unrecognized option: $1
+Try \`$0 --help' for more information." >&2;}
+ { (exit 1); exit 1; }; } ;;
+
+ *) ac_config_targets="$ac_config_targets $1" ;;
+
+ esac
+ shift
+done
+
+ac_configure_extra_args=
+
+if $ac_cs_silent; then
+ exec 6>/dev/null
+ ac_configure_extra_args="$ac_configure_extra_args --silent"
+fi
+
+if $ac_cs_recheck; then
+ echo "running /bin/sh ./configure " 'py_path=/usr/bin/python' $ac_configure_extra_args " --no-create --no-recursion" >&6
+ exec /bin/sh ./configure 'py_path=/usr/bin/python' $ac_configure_extra_args --no-create --no-recursion
+fi
+
+#
+# INIT-COMMANDS section.
+#
+
+AMDEP_TRUE="" ac_aux_dir="config"
+
+for ac_config_target in $ac_config_targets
+do
+ case "$ac_config_target" in
+ # Handling of arguments.
+ "Makefile" ) CONFIG_FILES="$CONFIG_FILES Makefile" ;;
+ "depfiles" ) CONFIG_COMMANDS="$CONFIG_COMMANDS depfiles" ;;
+ *) { { echo "$as_me:$LINENO: error: invalid argument: $ac_config_target" >&5
+echo "$as_me: error: invalid argument: $ac_config_target" >&2;}
+ { (exit 1); exit 1; }; };;
+ esac
+done
+
+# If the user did not use the arguments to specify the items to instantiate,
+# then the envvar interface is used. Set only those that are not.
+# We use the long form for the default assignment because of an extremely
+# bizarre bug on SunOS 4.1.3.
+if $ac_need_defaults; then
+ test "${CONFIG_FILES+set}" = set || CONFIG_FILES=$config_files
+ test "${CONFIG_COMMANDS+set}" = set || CONFIG_COMMANDS=$config_commands
+fi
+
+# Have a temporary directory for convenience. Make it in the build tree
+# simply because there is no reason to put it here, and in addition,
+# creating and moving files from /tmp can sometimes cause problems.
+# Create a temporary directory, and hook for its removal unless debugging.
+$debug ||
+{
+ trap 'exit_status=$?; rm -rf $tmp && exit $exit_status' 0
+ trap '{ (exit 1); exit 1; }' 1 2 13 15
+}
+
+# Create a (secure) tmp directory for tmp files.
+
+{
+ tmp=`(umask 077 && mktemp -d -q "./confstatXXXXXX") 2>/dev/null` &&
+ test -n "$tmp" && test -d "$tmp"
+} ||
+{
+ tmp=./confstat$$-$RANDOM
+ (umask 077 && mkdir $tmp)
+} ||
+{
+ echo "$me: cannot create a temporary directory in ." >&2
+ { (exit 1); exit 1; }
+}
+
+
+#
+# CONFIG_FILES section.
+#
+
+# No need to generate the scripts if there are no CONFIG_FILES.
+# This happens for instance when ./config.status config.h
+if test -n "$CONFIG_FILES"; then
+ # Protect against being on the right side of a sed subst in config.status.
+ sed 's/,@/@@/; s/@,/@@/; s/,;t t$/@;t t/; /@;t t$/s/[\\&,]/\\&/g;
+ s/@@/,@/; s/@@/@,/; s/@;t t$/,;t t/' >$tmp/subs.sed <<\CEOF
+s, at SHELL@,/bin/sh,;t t
+s, at PATH_SEPARATOR@,:,;t t
+s, at PACKAGE_NAME@,PropKa,;t t
+s, at PACKAGE_TARNAME@,propka,;t t
+s, at PACKAGE_VERSION@,1.0.0,;t t
+s, at PACKAGE_STRING@,PropKa 1.0.0,;t t
+s, at PACKAGE_BUGREPORT@,Jan-Jensen at uiowa.edu,;t t
+s, at exec_prefix@,${prefix},;t t
+s, at prefix@,/Users/yhuang,;t t
+s, at program_transform_name@,s,x,x,,;t t
+s, at bindir@,${exec_prefix}/bin,;t t
+s, at sbindir@,${exec_prefix}/sbin,;t t
+s, at libexecdir@,${exec_prefix}/libexec,;t t
+s, at datadir@,${prefix}/share,;t t
+s, at sysconfdir@,${prefix}/etc,;t t
+s, at sharedstatedir@,${prefix}/com,;t t
+s, at localstatedir@,${prefix}/var,;t t
+s, at libdir@,${exec_prefix}/lib,;t t
+s, at includedir@,${prefix}/include,;t t
+s, at oldincludedir@,/usr/include,;t t
+s, at infodir@,${prefix}/info,;t t
+s, at mandir@,${prefix}/man,;t t
+s, at build_alias@,,;t t
+s, at host_alias@,,;t t
+s, at target_alias@,,;t t
+s, at DEFS@,-DPACKAGE_NAME=\"PropKa\" -DPACKAGE_TARNAME=\"propka\" -DPACKAGE_VERSION=\"1.0.0\" -DPACKAGE_STRING=\"PropKa\ 1.0.0\" -DPACKAGE_BUGREPORT=\"Jan-Jensen at uiowa.edu\" -DPACKAGE=\"PropKa\" -DVERSION=\"1.0.0\" ,;t t
+s, at ECHO_C@,,;t t
+s, at ECHO_N@,-n,;t t
+s, at ECHO_T@,,;t t
+s, at LIBS@,,;t t
+s, at build@,i386-apple-darwin8.11.1,;t t
+s, at build_cpu@,i386,;t t
+s, at build_vendor@,apple,;t t
+s, at build_os@,darwin8.11.1,;t t
+s, at host@,i386-apple-darwin8.11.1,;t t
+s, at host_cpu@,i386,;t t
+s, at host_vendor@,apple,;t t
+s, at host_os@,darwin8.11.1,;t t
+s, at target@,i386-apple-darwin8.11.1,;t t
+s, at target_cpu@,i386,;t t
+s, at target_vendor@,apple,;t t
+s, at target_os@,darwin8.11.1,;t t
+s, at INSTALL_PROGRAM@,${INSTALL},;t t
+s, at INSTALL_SCRIPT@,${INSTALL},;t t
+s, at INSTALL_DATA@,${INSTALL} -m 644,;t t
+s, at PACKAGE@,PropKa,;t t
+s, at VERSION@,1.0.0,;t t
+s, at ACLOCAL@,:,;t t
+s, at AUTOCONF@,:,;t t
+s, at AUTOMAKE@,:,;t t
+s, at AUTOHEADER@,:,;t t
+s, at MAKEINFO@,${SHELL} /Users/yhuang/Desktop/pdb2pqr-1.3.0/propka/config/missing --run makeinfo,;t t
+s, at AMTAR@,${SHELL} /Users/yhuang/Desktop/pdb2pqr-1.3.0/propka/config/missing --run tar,;t t
+s, at install_sh@,/Users/yhuang/Desktop/pdb2pqr-1.3.0/propka/config/install-sh,;t t
+s, at STRIP@,,;t t
+s, at ac_ct_STRIP@,,;t t
+s, at INSTALL_STRIP_PROGRAM@,${SHELL} $(install_sh) -c -s,;t t
+s, at AWK@,gawk,;t t
+s, at SET_MAKE@,,;t t
+s, at PROPKA_VERSION@,1:0:0,;t t
+s, at py_path@,/usr/bin/python,;t t
+s, at CC@,gcc,;t t
+s, at CFLAGS@,-g -O2,;t t
+s, at LDFLAGS@,,;t t
+s, at CPPFLAGS@,,;t t
+s, at ac_ct_CC@,gcc,;t t
+s, at EXEEXT@,,;t t
+s, at OBJEXT@,o,;t t
+s, at DEPDIR@,.deps,;t t
+s, at am__include@,include,;t t
+s, at am__quote@,,;t t
+s, at AMDEP_TRUE@,,;t t
+s, at AMDEP_FALSE@,#,;t t
+s, at AMDEPBACKSLASH@,\,;t t
+s, at CCDEPMODE@,depmode=none,;t t
+s, at F77@,g95,;t t
+s, at FFLAGS@, -g -O2,;t t
+s, at ac_ct_F77@,g95,;t t
+s, at CPP@,gcc -E,;t t
+s, at PY_SHARED@,,;t t
+s, at PY_LDFLAGS@,-Wl,-framework -Wl,Python -bundle,;t t
+s, at PY_CFLAGS@,-I/System/Library/Frameworks/Python.framework/Versions/2.3/include/python2.3,;t t
+s, at PY_FLAGS@,,;t t
+s, at LIBOBJS@,,;t t
+s, at LTLIBOBJS@,,;t t
+CEOF
+
+ # Split the substitutions into bite-sized pieces for seds with
+ # small command number limits, like on Digital OSF/1 and HP-UX.
+ ac_max_sed_lines=48
+ ac_sed_frag=1 # Number of current file.
+ ac_beg=1 # First line for current file.
+ ac_end=$ac_max_sed_lines # Line after last line for current file.
+ ac_more_lines=:
+ ac_sed_cmds=
+ while $ac_more_lines; do
+ if test $ac_beg -gt 1; then
+ sed "1,${ac_beg}d; ${ac_end}q" $tmp/subs.sed >$tmp/subs.frag
+ else
+ sed "${ac_end}q" $tmp/subs.sed >$tmp/subs.frag
+ fi
+ if test ! -s $tmp/subs.frag; then
+ ac_more_lines=false
+ else
+ # The purpose of the label and of the branching condition is to
+ # speed up the sed processing (if there are no `@' at all, there
+ # is no need to browse any of the substitutions).
+ # These are the two extra sed commands mentioned above.
+ (echo ':t
+ /@[a-zA-Z_][a-zA-Z_0-9]*@/!b' && cat $tmp/subs.frag) >$tmp/subs-$ac_sed_frag.sed
+ if test -z "$ac_sed_cmds"; then
+ ac_sed_cmds="sed -f $tmp/subs-$ac_sed_frag.sed"
+ else
+ ac_sed_cmds="$ac_sed_cmds | sed -f $tmp/subs-$ac_sed_frag.sed"
+ fi
+ ac_sed_frag=`expr $ac_sed_frag + 1`
+ ac_beg=$ac_end
+ ac_end=`expr $ac_end + $ac_max_sed_lines`
+ fi
+ done
+ if test -z "$ac_sed_cmds"; then
+ ac_sed_cmds=cat
+ fi
+fi # test -n "$CONFIG_FILES"
+
+for ac_file in : $CONFIG_FILES; do test "x$ac_file" = x: && continue
+ # Support "outfile[:infile[:infile...]]", defaulting infile="outfile.in".
+ case $ac_file in
+ - | *:- | *:-:* ) # input from stdin
+ cat >$tmp/stdin
+ ac_file_in=`echo "$ac_file" | sed 's,[^:]*:,,'`
+ ac_file=`echo "$ac_file" | sed 's,:.*,,'` ;;
+ *:* ) ac_file_in=`echo "$ac_file" | sed 's,[^:]*:,,'`
+ ac_file=`echo "$ac_file" | sed 's,:.*,,'` ;;
+ * ) ac_file_in=$ac_file.in ;;
+ esac
+
+ # Compute @srcdir@, @top_srcdir@, and @INSTALL@ for subdirectories.
+ ac_dir=`(dirname "$ac_file") 2>/dev/null ||
+$as_expr X"$ac_file" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
+ X"$ac_file" : 'X\(//\)[^/]' \| \
+ X"$ac_file" : 'X\(//\)$' \| \
+ X"$ac_file" : 'X\(/\)' \| \
+ . : '\(.\)' 2>/dev/null ||
+echo X"$ac_file" |
+ sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{ s//\1/; q; }
+ /^X\(\/\/\)[^/].*/{ s//\1/; q; }
+ /^X\(\/\/\)$/{ s//\1/; q; }
+ /^X\(\/\).*/{ s//\1/; q; }
+ s/.*/./; q'`
+ { if $as_mkdir_p; then
+ mkdir -p "$ac_dir"
+ else
+ as_dir="$ac_dir"
+ as_dirs=
+ while test ! -d "$as_dir"; do
+ as_dirs="$as_dir $as_dirs"
+ as_dir=`(dirname "$as_dir") 2>/dev/null ||
+$as_expr X"$as_dir" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
+ X"$as_dir" : 'X\(//\)[^/]' \| \
+ X"$as_dir" : 'X\(//\)$' \| \
+ X"$as_dir" : 'X\(/\)' \| \
+ . : '\(.\)' 2>/dev/null ||
+echo X"$as_dir" |
+ sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{ s//\1/; q; }
+ /^X\(\/\/\)[^/].*/{ s//\1/; q; }
+ /^X\(\/\/\)$/{ s//\1/; q; }
+ /^X\(\/\).*/{ s//\1/; q; }
+ s/.*/./; q'`
+ done
+ test ! -n "$as_dirs" || mkdir $as_dirs
+ fi || { { echo "$as_me:$LINENO: error: cannot create directory \"$ac_dir\"" >&5
+echo "$as_me: error: cannot create directory \"$ac_dir\"" >&2;}
+ { (exit 1); exit 1; }; }; }
+
+ ac_builddir=.
+
+if test "$ac_dir" != .; then
+ ac_dir_suffix=/`echo "$ac_dir" | sed 's,^\.[\\/],,'`
+ # A "../" for each directory in $ac_dir_suffix.
+ ac_top_builddir=`echo "$ac_dir_suffix" | sed 's,/[^\\/]*,../,g'`
+else
+ ac_dir_suffix= ac_top_builddir=
+fi
+
+case $srcdir in
+ .) # No --srcdir option. We are building in place.
+ ac_srcdir=.
+ if test -z "$ac_top_builddir"; then
+ ac_top_srcdir=.
+ else
+ ac_top_srcdir=`echo $ac_top_builddir | sed 's,/$,,'`
+ fi ;;
+ [\\/]* | ?:[\\/]* ) # Absolute path.
+ ac_srcdir=$srcdir$ac_dir_suffix;
+ ac_top_srcdir=$srcdir ;;
+ *) # Relative path.
+ ac_srcdir=$ac_top_builddir$srcdir$ac_dir_suffix
+ ac_top_srcdir=$ac_top_builddir$srcdir ;;
+esac
+# Don't blindly perform a `cd "$ac_dir"/$ac_foo && pwd` since $ac_foo can be
+# absolute.
+ac_abs_builddir=`cd "$ac_dir" && cd $ac_builddir && pwd`
+ac_abs_top_builddir=`cd "$ac_dir" && cd ${ac_top_builddir}. && pwd`
+ac_abs_srcdir=`cd "$ac_dir" && cd $ac_srcdir && pwd`
+ac_abs_top_srcdir=`cd "$ac_dir" && cd $ac_top_srcdir && pwd`
+
+
+ case $INSTALL in
+ [\\/$]* | ?:[\\/]* ) ac_INSTALL=$INSTALL ;;
+ *) ac_INSTALL=$ac_top_builddir$INSTALL ;;
+ esac
+
+ if test x"$ac_file" != x-; then
+ { echo "$as_me:$LINENO: creating $ac_file" >&5
+echo "$as_me: creating $ac_file" >&6;}
+ rm -f "$ac_file"
+ fi
+ # Let's still pretend it is `configure' which instantiates (i.e., don't
+ # use $as_me), people would be surprised to read:
+ # /* config.h. Generated by config.status. */
+ if test x"$ac_file" = x-; then
+ configure_input=
+ else
+ configure_input="$ac_file. "
+ fi
+ configure_input=$configure_input"Generated from `echo $ac_file_in |
+ sed 's,.*/,,'` by configure."
+
+ # First look for the input files in the build tree, otherwise in the
+ # src tree.
+ ac_file_inputs=`IFS=:
+ for f in $ac_file_in; do
+ case $f in
+ -) echo $tmp/stdin ;;
+ [\\/$]*)
+ # Absolute (can't be DOS-style, as IFS=:)
+ test -f "$f" || { { echo "$as_me:$LINENO: error: cannot find input file: $f" >&5
+echo "$as_me: error: cannot find input file: $f" >&2;}
+ { (exit 1); exit 1; }; }
+ echo $f;;
+ *) # Relative
+ if test -f "$f"; then
+ # Build tree
+ echo $f
+ elif test -f "$srcdir/$f"; then
+ # Source tree
+ echo $srcdir/$f
+ else
+ # /dev/null tree
+ { { echo "$as_me:$LINENO: error: cannot find input file: $f" >&5
+echo "$as_me: error: cannot find input file: $f" >&2;}
+ { (exit 1); exit 1; }; }
+ fi;;
+ esac
+ done` || { (exit 1); exit 1; }
+ sed "/^[ ]*VPATH[ ]*=/{
+s/:*\$(srcdir):*/:/;
+s/:*\${srcdir}:*/:/;
+s/:*@srcdir@:*/:/;
+s/^\([^=]*=[ ]*\):*/\1/;
+s/:*$//;
+s/^[^=]*=[ ]*$//;
+}
+
+:t
+/@[a-zA-Z_][a-zA-Z_0-9]*@/!b
+s, at configure_input@,$configure_input,;t t
+s, at srcdir@,$ac_srcdir,;t t
+s, at abs_srcdir@,$ac_abs_srcdir,;t t
+s, at top_srcdir@,$ac_top_srcdir,;t t
+s, at abs_top_srcdir@,$ac_abs_top_srcdir,;t t
+s, at builddir@,$ac_builddir,;t t
+s, at abs_builddir@,$ac_abs_builddir,;t t
+s, at top_builddir@,$ac_top_builddir,;t t
+s, at abs_top_builddir@,$ac_abs_top_builddir,;t t
+s, at INSTALL@,$ac_INSTALL,;t t
+" $ac_file_inputs | (eval "$ac_sed_cmds") >$tmp/out
+ rm -f $tmp/stdin
+ if test x"$ac_file" != x-; then
+ mv $tmp/out $ac_file
+ else
+ cat $tmp/out
+ rm -f $tmp/out
+ fi
+
+done
+
+#
+# CONFIG_COMMANDS section.
+#
+for ac_file in : $CONFIG_COMMANDS; do test "x$ac_file" = x: && continue
+ ac_dest=`echo "$ac_file" | sed 's,:.*,,'`
+ ac_source=`echo "$ac_file" | sed 's,[^:]*:,,'`
+ ac_dir=`(dirname "$ac_dest") 2>/dev/null ||
+$as_expr X"$ac_dest" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
+ X"$ac_dest" : 'X\(//\)[^/]' \| \
+ X"$ac_dest" : 'X\(//\)$' \| \
+ X"$ac_dest" : 'X\(/\)' \| \
+ . : '\(.\)' 2>/dev/null ||
+echo X"$ac_dest" |
+ sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{ s//\1/; q; }
+ /^X\(\/\/\)[^/].*/{ s//\1/; q; }
+ /^X\(\/\/\)$/{ s//\1/; q; }
+ /^X\(\/\).*/{ s//\1/; q; }
+ s/.*/./; q'`
+ ac_builddir=.
+
+if test "$ac_dir" != .; then
+ ac_dir_suffix=/`echo "$ac_dir" | sed 's,^\.[\\/],,'`
+ # A "../" for each directory in $ac_dir_suffix.
+ ac_top_builddir=`echo "$ac_dir_suffix" | sed 's,/[^\\/]*,../,g'`
+else
+ ac_dir_suffix= ac_top_builddir=
+fi
+
+case $srcdir in
+ .) # No --srcdir option. We are building in place.
+ ac_srcdir=.
+ if test -z "$ac_top_builddir"; then
+ ac_top_srcdir=.
+ else
+ ac_top_srcdir=`echo $ac_top_builddir | sed 's,/$,,'`
+ fi ;;
+ [\\/]* | ?:[\\/]* ) # Absolute path.
+ ac_srcdir=$srcdir$ac_dir_suffix;
+ ac_top_srcdir=$srcdir ;;
+ *) # Relative path.
+ ac_srcdir=$ac_top_builddir$srcdir$ac_dir_suffix
+ ac_top_srcdir=$ac_top_builddir$srcdir ;;
+esac
+# Don't blindly perform a `cd "$ac_dir"/$ac_foo && pwd` since $ac_foo can be
+# absolute.
+ac_abs_builddir=`cd "$ac_dir" && cd $ac_builddir && pwd`
+ac_abs_top_builddir=`cd "$ac_dir" && cd ${ac_top_builddir}. && pwd`
+ac_abs_srcdir=`cd "$ac_dir" && cd $ac_srcdir && pwd`
+ac_abs_top_srcdir=`cd "$ac_dir" && cd $ac_top_srcdir && pwd`
+
+
+ { echo "$as_me:$LINENO: executing $ac_dest commands" >&5
+echo "$as_me: executing $ac_dest commands" >&6;}
+ case $ac_dest in
+ depfiles ) test x"$AMDEP_TRUE" != x"" || for mf in $CONFIG_FILES; do
+ # Strip MF so we end up with the name of the file.
+ mf=`echo "$mf" | sed -e 's/:.*$//'`
+ # Check whether this is an Automake generated Makefile or not.
+ # We used to match only the files named `Makefile.in', but
+ # some people rename them; so instead we look at the file content.
+ # Grep'ing the first line is not enough: some people post-process
+ # each Makefile.in and add a new line on top of each file to say so.
+ # So let's grep whole file.
+ if grep '^#.*generated by automake' $mf > /dev/null 2>&1; then
+ dirpart=`(dirname "$mf") 2>/dev/null ||
+$as_expr X"$mf" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
+ X"$mf" : 'X\(//\)[^/]' \| \
+ X"$mf" : 'X\(//\)$' \| \
+ X"$mf" : 'X\(/\)' \| \
+ . : '\(.\)' 2>/dev/null ||
+echo X"$mf" |
+ sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{ s//\1/; q; }
+ /^X\(\/\/\)[^/].*/{ s//\1/; q; }
+ /^X\(\/\/\)$/{ s//\1/; q; }
+ /^X\(\/\).*/{ s//\1/; q; }
+ s/.*/./; q'`
+ else
+ continue
+ fi
+ grep '^DEP_FILES *= *[^ #]' < "$mf" > /dev/null || continue
+ # Extract the definition of DEP_FILES from the Makefile without
+ # running `make'.
+ DEPDIR=`sed -n -e '/^DEPDIR = / s///p' < "$mf"`
+ test -z "$DEPDIR" && continue
+ # When using ansi2knr, U may be empty or an underscore; expand it
+ U=`sed -n -e '/^U = / s///p' < "$mf"`
+ test -d "$dirpart/$DEPDIR" || mkdir "$dirpart/$DEPDIR"
+ # We invoke sed twice because it is the simplest approach to
+ # changing $(DEPDIR) to its actual value in the expansion.
+ for file in `sed -n -e '
+ /^DEP_FILES = .*\\\\$/ {
+ s/^DEP_FILES = //
+ :loop
+ s/\\\\$//
+ p
+ n
+ /\\\\$/ b loop
+ p
+ }
+ /^DEP_FILES = / s/^DEP_FILES = //p' < "$mf" | \
+ sed -e 's/\$(DEPDIR)/'"$DEPDIR"'/g' -e 's/\$U/'"$U"'/g'`; do
+ # Make sure the directory exists.
+ test -f "$dirpart/$file" && continue
+ fdir=`(dirname "$file") 2>/dev/null ||
+$as_expr X"$file" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
+ X"$file" : 'X\(//\)[^/]' \| \
+ X"$file" : 'X\(//\)$' \| \
+ X"$file" : 'X\(/\)' \| \
+ . : '\(.\)' 2>/dev/null ||
+echo X"$file" |
+ sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{ s//\1/; q; }
+ /^X\(\/\/\)[^/].*/{ s//\1/; q; }
+ /^X\(\/\/\)$/{ s//\1/; q; }
+ /^X\(\/\).*/{ s//\1/; q; }
+ s/.*/./; q'`
+ { if $as_mkdir_p; then
+ mkdir -p $dirpart/$fdir
+ else
+ as_dir=$dirpart/$fdir
+ as_dirs=
+ while test ! -d "$as_dir"; do
+ as_dirs="$as_dir $as_dirs"
+ as_dir=`(dirname "$as_dir") 2>/dev/null ||
+$as_expr X"$as_dir" : 'X\(.*[^/]\)//*[^/][^/]*/*$' \| \
+ X"$as_dir" : 'X\(//\)[^/]' \| \
+ X"$as_dir" : 'X\(//\)$' \| \
+ X"$as_dir" : 'X\(/\)' \| \
+ . : '\(.\)' 2>/dev/null ||
+echo X"$as_dir" |
+ sed '/^X\(.*[^/]\)\/\/*[^/][^/]*\/*$/{ s//\1/; q; }
+ /^X\(\/\/\)[^/].*/{ s//\1/; q; }
+ /^X\(\/\/\)$/{ s//\1/; q; }
+ /^X\(\/\).*/{ s//\1/; q; }
+ s/.*/./; q'`
+ done
+ test ! -n "$as_dirs" || mkdir $as_dirs
+ fi || { { echo "$as_me:$LINENO: error: cannot create directory $dirpart/$fdir" >&5
+echo "$as_me: error: cannot create directory $dirpart/$fdir" >&2;}
+ { (exit 1); exit 1; }; }; }
+
+ # echo "creating $dirpart/$file"
+ echo '# dummy' > "$dirpart/$file"
+ done
+done
+ ;;
+ esac
+done
+
+{ (exit 0); exit 0; }
Property changes on: trunk/packages/pdb2pqr/branches/upstream/current/propka/config.status
___________________________________________________________________
Name: svn:executable
+ *
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