diff options
27 files changed, 4 insertions, 2731 deletions
@@ -6527,3 +6527,7 @@ audio/festvox-us3-mbrola||2014-09-01|Not staged audio/ipod-sharp||2014-09-01|Not staged audio/linux-musicipserver||2014-09-01|Not staged audio/liquidsoap||2014-09-01|Not staged +benchmarks/spec-sfs||2014-09-01|Not staged +biology/blast||2014-09-01|Not staged +biology/embassy||2014-09-01|Not staged +biology/pymol||2014-09-01|Not staged diff --git a/benchmarks/spec-sfs/Makefile b/benchmarks/spec-sfs/Makefile deleted file mode 100644 index df577a9c6da1..000000000000 --- a/benchmarks/spec-sfs/Makefile +++ /dev/null @@ -1,63 +0,0 @@ -# Created by: Craig Rodrigues <rodrigc@FreeBSD.org> -# $FreeBSD$ -# -# Based on port originally created by Garrett Cooper <gcooper@FreeBSD.org> -# - -PORTNAME= spec-sfs -PORTVERSION= 2008 -CATEGORIES= benchmarks java -DISTNAME= SPECsfs2008-1.00 -EXTRACT_SUFX= .iso - -MAINTAINER= ports@FreeBSD.org -COMMENT= SPEC NFS and CIFS filesystem benchmark suite - -NO_PACKAGE= license restricts redistribution -RESTRICTED= license restricts redistribution - -USES= gmake perl5 -USE_PERL5= run -USE_JAVA= yes -JAVA_VERSION= 1.6+ - -SUB_FILES= pkg-message - -WRKSRC= ${WRKDIR} -BUILD_WRKSRC= ${WRKSRC}/spec-sfs2008 -DOWNLOAD_URL?= http://www.spec.org/sfs2008/ -SPEC_ROOT?= ${PREFIX}/${PORTNAME} - -DOCSDIR= ${SPEC_ROOT}/documents - -OPTIONS_DEFINE= RESERVED_PORT -OPTIONS_DEFAULT= RESERVED_PORT - -RESERVED_PORT_DESC= Use privileged ports when doing NFS testing - -RESERVED_PORT_CFLAGS= -DRESVPORT - -# Substitutions for pkg-plist -PLIST_SUB+= SPEC_ROOT=${SPEC_ROOT} - -NO_STAGE= yes -.include <bsd.port.pre.mk> - -.if !exists(${DISTDIR}/${DISTNAME}${EXTRACT_SUFX}) -IGNORE?=You must purchase ${DISTFILES} from SPEC (${DOWNLOAD_URL}), place it in ${DISTDIR} and then run make again -.endif - -pre-install: - ${FIND} ${WRKDIR} -name "*\.orig" -delete - -do-install: - cd ${WRKDIR}/spec-sfs2008/manager && ${JAVA} SpecInstall ${SPEC_ROOT} - ${RM} -fr ${SPEC_ROOT}/binaries - ${CHMOD} g+w ${SPEC_ROOT}/result - -post-install: - @${ECHO_CMD} - @${CAT} ${WRKDIR}/${PKGMESSAGE:T} - @${ECHO_CMD} - -.include <bsd.port.post.mk> diff --git a/benchmarks/spec-sfs/distinfo b/benchmarks/spec-sfs/distinfo deleted file mode 100644 index 97dadf4d45ad..000000000000 --- a/benchmarks/spec-sfs/distinfo +++ /dev/null @@ -1,2 +0,0 @@ -SHA256 (SPECsfs2008-1.00.iso) = ef7e7056c08960a2b13fff9680bbf60e5f8f3ecd0b458e1ff91a14cb198212e2 -SIZE (SPECsfs2008-1.00.iso) = 31132924 diff --git a/benchmarks/spec-sfs/files/patch-Makefile b/benchmarks/spec-sfs/files/patch-Makefile deleted file mode 100644 index 6175a953f43f..000000000000 --- a/benchmarks/spec-sfs/files/patch-Makefile +++ /dev/null @@ -1,15 +0,0 @@ ---- spec-sfs2008/Makefile.orig 2013-09-24 02:00:10.013168784 -0700 -+++ spec-sfs2008/Makefile 2013-09-24 02:02:29.965159029 -0700 -@@ -65,10 +65,10 @@ - ifeq ($(OS), freebsd) - MACHID= freebsd - CC= /usr/bin/gcc --OPT= -O -+OPT= -O0 - LIBS= -lm - OSTYPE= -DFreeBSD --EXTRA_CFLAGS= -DSETPGRP_BSD -DNO_T_TYPES -DUSE_INTTYPES $(CIFS_CFLAGS) $(MVFDN_FLAG) -+EXTRA_CFLAGS= -DSETPGRP_BSD -DNO_T_TYPES -DUSE_INTTYPES -DUSE_POSIX_SIGNALS $(CIFS_CFLAGS) $(MVFDN_FLAG) - CIFS_CFLAGS = -DCIFS_VFS_USERSPACE - RESVPORT_MOUNT= - SFSCIFS = sfscifs diff --git a/benchmarks/spec-sfs/files/patch-libcifs-connect.c b/benchmarks/spec-sfs/files/patch-libcifs-connect.c deleted file mode 100644 index 6ddb8ef5cc49..000000000000 --- a/benchmarks/spec-sfs/files/patch-libcifs-connect.c +++ /dev/null @@ -1,26 +0,0 @@ ---- spec-sfs2008/redistributable_sources/libcifs/connect.c.orig 2008-02-02 21:30:04.000000000 -0800 -+++ spec-sfs2008/redistributable_sources/libcifs/connect.c 2011-08-20 15:50:55.000000000 -0700 -@@ -19,6 +19,9 @@ - * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA - */ - -+#if defined(FreeBSD) -+#include <sys/param.h> -+#endif - #ifndef CIFS_VFS_USERSPACE - #include <linux/fs.h> - #include <linux/net.h> -@@ -102,9 +105,10 @@ - unsigned short int port; - }; - --#if defined(FreeBSD) || defined(SOLARIS2) || defined(macosx) --int --strnlen(char *a,int len) -+#if (defined(FreeBSD) && __FreeBSD_version < 800067) || \ -+ defined(SOLARIS2) || defined(macosx) -+size_t -+strnlen(const char *a, size_t maxlen) - { - int i,j; - j=0; diff --git a/benchmarks/spec-sfs/files/patch-post_install.sh b/benchmarks/spec-sfs/files/patch-post_install.sh deleted file mode 100644 index dd6100f537b8..000000000000 --- a/benchmarks/spec-sfs/files/patch-post_install.sh +++ /dev/null @@ -1,11 +0,0 @@ ---- spec-sfs2008/post_install.sh.orig 2013-09-23 14:24:56.000000000 -0700 -+++ spec-sfs2008/post_install.sh 2013-09-23 14:25:16.000000000 -0700 -@@ -19,7 +19,7 @@ - # - # Fix up the binaries - # --for i in binaries/* -+for i in binaries/* bin - do - if [ -f $i/sfsnfs3 ]; then - chmod 755 $i/sfs* diff --git a/benchmarks/spec-sfs/files/patch-src-Makefile b/benchmarks/spec-sfs/files/patch-src-Makefile deleted file mode 100644 index bf723b76fb4f..000000000000 --- a/benchmarks/spec-sfs/files/patch-src-Makefile +++ /dev/null @@ -1,11 +0,0 @@ ---- spec-sfs2008/src/Makefile.orig 2013-09-12 16:56:55.851060286 -0700 -+++ spec-sfs2008/src/Makefile 2013-09-12 16:57:25.012057145 -0700 -@@ -216,7 +216,7 @@ - - ${RPCLIB}: FRC - @cd rpc; ${MAKE} MACHID="${MACHID}" \ -- CC="${CC}" CFLAGS="${CFLAGS}" \ -+ CC="${CC}" CFLAGS="${CFLAGS}" DEBUG="${DEBUG}" \ - LDFLAGS="${LDFLAGS}" EXTRA_CFLAGS="${EXTRA_CFLAGS}" \ - EXTRA_LDFLAGS="${EXTRA_LDFLAGS}" EXTRA_LIBS="${EXTRA_LIBS}" \ - LIBS="${LIBS}" OSTYPE="${OSTYPE}" OPT="${OPT}" \ diff --git a/benchmarks/spec-sfs/files/patch-submit_tools-Makefile b/benchmarks/spec-sfs/files/patch-submit_tools-Makefile deleted file mode 100644 index 259a54a76f75..000000000000 --- a/benchmarks/spec-sfs/files/patch-submit_tools-Makefile +++ /dev/null @@ -1,19 +0,0 @@ ---- spec-sfs2008/submit_tools/Makefile.orig 2013-09-12 13:38:44.941878849 -0700 -+++ spec-sfs2008/submit_tools/Makefile 2013-09-12 13:39:15.160876702 -0700 -@@ -10,12 +10,12 @@ - INSTALLDIR=. - - install: -- cd $(SPECREPORT); make install -- cd $(SUBEDIT); make install -+ cd $(SPECREPORT); $(MAKE) install -+ cd $(SUBEDIT); $(MAKE) install - - clean: -- cd $(SPECREPORT); make clean -- cd $(SUBEDIT); make clean -+ cd $(SPECREPORT); $(MAKE) clean -+ cd $(SUBEDIT); $(MAKE) clean - - uninstall: - cd $(INSTALLDIR); rm -f specreport.pl subedit.pl diff --git a/benchmarks/spec-sfs/files/pkg-message.in b/benchmarks/spec-sfs/files/pkg-message.in deleted file mode 100644 index 6db58cefaf88..000000000000 --- a/benchmarks/spec-sfs/files/pkg-message.in +++ /dev/null @@ -1,3 +0,0 @@ -Be sure to read through the documentation in -%%DOCSDIR%% for how to properly -setup SPECsfs2008. diff --git a/benchmarks/spec-sfs/pkg-descr b/benchmarks/spec-sfs/pkg-descr deleted file mode 100644 index a76a31236d65..000000000000 --- a/benchmarks/spec-sfs/pkg-descr +++ /dev/null @@ -1,16 +0,0 @@ -SPECsfs2008: the SPEC NFSv3/CIFS benchmark - -SPECsfs2008 is the latest version of the Standard Performance Evaluation -Corporation benchmark suite measuring file server throughput and response time, -providing a standardized method for comparing performance across different -vendor platforms. SPECsfs2008 results summarize the server's capabilities with -respect to the number of operations that can be handled per second, as well as -the overall latency of the operations. The suite is a follow-on to the SFS97_R1 -benchmark, adding a CIFS workload, an updated NFSv3 workload, support for -additional client platforms, and a new test harness and reporting/submission -framework. - -The ISO for SPECsfs2008 must be purchased from SPEC's web site, before -this port can be built. - -WWW: http://www.spec.org/sfs2008/ diff --git a/benchmarks/spec-sfs/pkg-message b/benchmarks/spec-sfs/pkg-message deleted file mode 100644 index b14df6442ea5..000000000000 --- a/benchmarks/spec-sfs/pkg-message +++ /dev/null @@ -1 +0,0 @@ -Hi diff --git a/benchmarks/spec-sfs/pkg-plist b/benchmarks/spec-sfs/pkg-plist deleted file mode 100644 index b4172031b05b..000000000000 --- a/benchmarks/spec-sfs/pkg-plist +++ /dev/null @@ -1,591 +0,0 @@ -%%SPEC_ROOT%%/bin/sfsnfs3 -%%SPEC_ROOT%%/bin/sfs_syncd -%%SPEC_ROOT%%/bin/sfs_ext_mon -%%SPEC_ROOT%%/bin/sfs_prime -%%SPEC_ROOT%%/bin/sfscifs -%%SPEC_ROOT%%/bin/.empty -%%SPEC_ROOT%%/src/sfs_c_dmp.c -%%SPEC_ROOT%%/src/sfs_m_prm.o -%%SPEC_ROOT%%/src/sfs_c_def.h -%%SPEC_ROOT%%/src/sfs_ext_mon -%%SPEC_ROOT%%/src/sfs_c_pnt.o -%%SPEC_ROOT%%/src/rpc/svc_auth.h -%%SPEC_ROOT%%/src/rpc/pmap_clnt.o -%%SPEC_ROOT%%/src/rpc/auth.h -%%SPEC_ROOT%%/src/rpc/xdr_array.c -%%SPEC_ROOT%%/src/rpc/clnt_tcp.o -%%SPEC_ROOT%%/src/rpc/rpcb_getport.c -%%SPEC_ROOT%%/src/rpc/librpclib.a -%%SPEC_ROOT%%/src/rpc/get_myaddress.c -%%SPEC_ROOT%%/src/rpc/rpc_msg.h -%%SPEC_ROOT%%/src/rpc/clnt_udp.o -%%SPEC_ROOT%%/src/rpc/sfs_cudp.c -%%SPEC_ROOT%%/src/rpc/osdep.h -%%SPEC_ROOT%%/src/rpc/svc_tcp.c -%%SPEC_ROOT%%/src/rpc/xdr_mem.c -%%SPEC_ROOT%%/src/rpc/svc_udp.c -%%SPEC_ROOT%%/src/rpc/rpc_commondata.o -%%SPEC_ROOT%%/src/rpc/sfs_ctcp.c -%%SPEC_ROOT%%/src/rpc/xdr_float.o -%%SPEC_ROOT%%/src/rpc/svc_simple.o -%%SPEC_ROOT%%/src/rpc/svc_auth_unix.o -%%SPEC_ROOT%%/src/rpc/clnt_simple.o -%%SPEC_ROOT%%/src/rpc/xdr_rec.c -%%SPEC_ROOT%%/src/rpc/svc_auth.o -%%SPEC_ROOT%%/src/rpc/pmap_getport.c -%%SPEC_ROOT%%/src/rpc/pmap_clnt.h -%%SPEC_ROOT%%/src/rpc/svc_run.c -%%SPEC_ROOT%%/src/rpc/xdr_reference.o -%%SPEC_ROOT%%/src/rpc/xdr.c -%%SPEC_ROOT%%/src/rpc/auth_unix.o -%%SPEC_ROOT%%/src/rpc/xdr_stdio.c -%%SPEC_ROOT%%/src/rpc/pmap_rmt.h -%%SPEC_ROOT%%/src/rpc/pmap_prot.o -%%SPEC_ROOT%%/src/rpc/clnt_generic.c -%%SPEC_ROOT%%/src/rpc/rpc_prot.o -%%SPEC_ROOT%%/src/rpc/authunix_prot.o -%%SPEC_ROOT%%/src/rpc/bindresvport.o -%%SPEC_ROOT%%/src/rpc/pmap_prot2.c -%%SPEC_ROOT%%/src/rpc/svc.c -%%SPEC_ROOT%%/src/rpc/auth_none.c -%%SPEC_ROOT%%/src/rpc/pmap_prot.h -%%SPEC_ROOT%%/src/rpc/auth_unix.h -%%SPEC_ROOT%%/src/rpc/clnt_perror.c -%%SPEC_ROOT%%/src/rpc/svc_raw.o -%%SPEC_ROOT%%/src/rpc/rpc_callmsg.o -%%SPEC_ROOT%%/src/rpc/rpc_dtablesize.o -%%SPEC_ROOT%%/src/rpc/getrpcport.c -%%SPEC_ROOT%%/src/rpc/xdr_array.o -%%SPEC_ROOT%%/src/rpc/getrpcent.c -%%SPEC_ROOT%%/src/rpc/pmap_clnt.c -%%SPEC_ROOT%%/src/rpc/clnt_udp.c -%%SPEC_ROOT%%/src/rpc/get_myaddress.o -%%SPEC_ROOT%%/src/rpc/rpcb_clnt.h -%%SPEC_ROOT%%/src/rpc/netdb.h -%%SPEC_ROOT%%/src/rpc/clnt_tcp.c -%%SPEC_ROOT%%/src/rpc/rpcb_getport.o -%%SPEC_ROOT%%/src/rpc/rpc_commondata.c -%%SPEC_ROOT%%/src/rpc/sfs_ctcp.o -%%SPEC_ROOT%%/src/rpc/xdr_float.c -%%SPEC_ROOT%%/src/rpc/xdr_mem.o -%%SPEC_ROOT%%/src/rpc/svc_udp.o -%%SPEC_ROOT%%/src/rpc/svc_tcp.o -%%SPEC_ROOT%%/src/rpc/sfs_cudp.o -%%SPEC_ROOT%%/src/rpc/xdr_rec.o -%%SPEC_ROOT%%/src/rpc/clnt.h -%%SPEC_ROOT%%/src/rpc/svc_auth.c -%%SPEC_ROOT%%/src/rpc/pmap_getport.o -%%SPEC_ROOT%%/src/rpc/types.h -%%SPEC_ROOT%%/src/rpc/pmap_getmaps.c -%%SPEC_ROOT%%/src/rpc/svc_simple.c -%%SPEC_ROOT%%/src/rpc/svc_auth_unix.c -%%SPEC_ROOT%%/src/rpc/clnt_simple.c -%%SPEC_ROOT%%/src/rpc/pmap_prot.c -%%SPEC_ROOT%%/src/rpc/auth_unix.c -%%SPEC_ROOT%%/src/rpc/xdr_stdio.o -%%SPEC_ROOT%%/src/rpc/rpc.h -%%SPEC_ROOT%%/src/rpc/xdr.o -%%SPEC_ROOT%%/src/rpc/xdr_reference.c -%%SPEC_ROOT%%/src/rpc/svc_run.o -%%SPEC_ROOT%%/src/rpc/bindresvport.c -%%SPEC_ROOT%%/src/rpc/authunix_prot.c -%%SPEC_ROOT%%/src/rpc/rpcb_prot.h -%%SPEC_ROOT%%/src/rpc/rpc_prot.c -%%SPEC_ROOT%%/src/rpc/svc.h -%%SPEC_ROOT%%/src/rpc/auth_none.o -%%SPEC_ROOT%%/src/rpc/pmap_prot2.o -%%SPEC_ROOT%%/src/rpc/svc.o -%%SPEC_ROOT%%/src/rpc/Makefile -%%SPEC_ROOT%%/src/rpc/rpc_dtablesize.c -%%SPEC_ROOT%%/src/rpc/socket_gen.h -%%SPEC_ROOT%%/src/rpc/xdr.h -%%SPEC_ROOT%%/src/rpc/rpc_callmsg.c -%%SPEC_ROOT%%/src/rpc/clnt_perror.o -%%SPEC_ROOT%%/src/rpc/svc_raw.c -%%SPEC_ROOT%%/src/rpc/pmap_rmt.c -%%SPEC_ROOT%%/src/sfs_cifs_ops.c -%%SPEC_ROOT%%/src/sfs_c_man.o -%%SPEC_ROOT%%/src/sfs_c_bio.c -%%SPEC_ROOT%%/src/sfs_c_sub.o -%%SPEC_ROOT%%/src/sfs_c_clnt.o -%%SPEC_ROOT%%/src/sfs_c_sig.o -%%SPEC_ROOT%%/src/sfs_cifs_vld.c -%%SPEC_ROOT%%/src/sfs_m_def.h -%%SPEC_ROOT%%/src/sfs_c_chd.c -%%SPEC_ROOT%%/src/sfs_c_hmm.o -%%SPEC_ROOT%%/src/sfs_m_msg.o -%%SPEC_ROOT%%/src/sfs_c_chd_cifs.c -%%SPEC_ROOT%%/src/sfs_3_xdr.o -%%SPEC_ROOT%%/src/sfs_m_snc.c -%%SPEC_ROOT%%/src/sfs_m_xdr.o -%%SPEC_ROOT%%/src/sfs_c_hsh.h -%%SPEC_ROOT%%/src/sfs_c_cifs.c -%%SPEC_ROOT%%/src/sfs_c_mnt.o -%%SPEC_ROOT%%/src/sfs_suchown -%%SPEC_ROOT%%/src/sfs_c_dat.c -%%SPEC_ROOT%%/src/sfs_c_nfs.c -%%SPEC_ROOT%%/src/sfs_c_clk.o -%%SPEC_ROOT%%/src/sfs_c_hsh.o -%%SPEC_ROOT%%/src/sfs_3_vld.c -%%SPEC_ROOT%%/src/sfs_3_ops.c -%%SPEC_ROOT%%/src/sfs_c_rnd.o -%%SPEC_ROOT%%/src/sfs_c_mnt_cifs.c -%%SPEC_ROOT%%/src/sfs_m_prm.c -%%SPEC_ROOT%%/src/sfs_c_dmp.o -%%SPEC_ROOT%%/src/UnivSystem.sh -%%SPEC_ROOT%%/src/sfs_c_pnt.c -%%SPEC_ROOT%%/src/Makefile -%%SPEC_ROOT%%/src/sfs_c_bio.o -%%SPEC_ROOT%%/src/sfs_c_sub.c -%%SPEC_ROOT%%/src/sfs_sync.x -%%SPEC_ROOT%%/src/sfs_cifs_ops.o -%%SPEC_ROOT%%/src/sfs_c_man.c -%%SPEC_ROOT%%/src/sfs_c_sig.c -%%SPEC_ROOT%%/src/sfs_c_types.h -%%SPEC_ROOT%%/src/sfs_cifs_vld.o -%%SPEC_ROOT%%/src/sfs_c_clnt.c -%%SPEC_ROOT%%/src/sfs_c_chd_cifs.o -%%SPEC_ROOT%%/src/sfs_m_msg.c -%%SPEC_ROOT%%/src/sfs_c_chd.o -%%SPEC_ROOT%%/src/sfs_c_hmm.c -%%SPEC_ROOT%%/src/sfs_c_mnt.c -%%SPEC_ROOT%%/src/sfs_c_nfs.h -%%SPEC_ROOT%%/src/sfs_c_cifs.o -%%SPEC_ROOT%%/src/sfs_3_xdr.c -%%SPEC_ROOT%%/src/sfs_m_snc.o -%%SPEC_ROOT%%/src/sfs_m_xdr.c -%%SPEC_ROOT%%/src/sfs_c_clk.c -%%SPEC_ROOT%%/src/sfs_c_hsh.c -%%SPEC_ROOT%%/src/sfs_c_cifs.h -%%SPEC_ROOT%%/src/sfs_3_vld.o -%%SPEC_ROOT%%/src/sfs_ext_mon.bat -%%SPEC_ROOT%%/src/sfs_c_dat.o -%%SPEC_ROOT%%/src/sfs_c_nfs.o -%%SPEC_ROOT%%/src/sfs_c_mnt_cifs.o -%%SPEC_ROOT%%/src/win32/win32_signum.h -%%SPEC_ROOT%%/src/win32/win32_stdint.h -%%SPEC_ROOT%%/src/win32/win32_getopt.c -%%SPEC_ROOT%%/src/win32/win32_if.h -%%SPEC_ROOT%%/src/win32/win32_sub.h -%%SPEC_ROOT%%/src/win32/win32_errno.h -%%SPEC_ROOT%%/src/win32/win32_types.h -%%SPEC_ROOT%%/src/win32/win32_getopt.h -%%SPEC_ROOT%%/src/win32/win32_portmap.c -%%SPEC_ROOT%%/src/win32/VS2005/win32_portmap/win32_portmap.vcproj -%%SPEC_ROOT%%/src/win32/VS2005/sfs_prime/sfs_prime.vcproj -%%SPEC_ROOT%%/src/win32/VS2005/sfs_syncd/sfs_syncd.vcproj -%%SPEC_ROOT%%/src/win32/VS2005/sfscifs/sfscifs.vcproj -%%SPEC_ROOT%%/src/win32/VS2005/SFS_WIN32.sln -%%SPEC_ROOT%%/src/win32/VS2005/cleanup.bat -%%SPEC_ROOT%%/src/win32/VS2005/rpc/rpc.vcproj -%%SPEC_ROOT%%/src/win32/VS2005/sfsnfs3/sfsnfs3.vcproj -%%SPEC_ROOT%%/src/win32/VS2005/libcifs/libcifs.vcproj -%%SPEC_ROOT%%/src/win32/win32_sub.c -%%SPEC_ROOT%%/src/sfs_c_rnd.c -%%SPEC_ROOT%%/src/sfs_3_ops.o -%%SPEC_ROOT%%/post_install.sh -%%SPEC_ROOT%%/documents/pdf/SPECsfs2008_run_rules.pdf -%%SPEC_ROOT%%/documents/pdf/SPECsfs2008_users_guide.pdf -%%SPEC_ROOT%%/documents/pdf/.empty -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide.htm -%%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules_files/image003.wmz -%%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules_files/filelist.xml -%%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules_files/image006.gif -%%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules_files/image005.wmz -%%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules_files/header.htm -%%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules_files/image002.gif -%%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules_files/image001.wmz -%%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules_files/image004.gif -%%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules.htm -%%SPEC_ROOT%%/documents/html/.empty -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files/filelist.xml -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files/image007.gif -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files/header.htm -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files/image001.gif -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files/image006.gif -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files/image005.gif -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files/image002.gif -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files/image003.gif -%%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files/image004.gif -%%SPEC_ROOT%%/documents/ms-word/SPECsfs2008_run_rules.doc -%%SPEC_ROOT%%/documents/ms-word/SPECsfs2008_users_guide.doc -%%SPEC_ROOT%%/redistributable_sources/XML-XPath-1.13.tar.gz -%%SPEC_ROOT%%/redistributable_sources/jcommon-1.0.8.tar.gz -%%SPEC_ROOT%%/redistributable_sources/XML-Parser_license.txt -%%SPEC_ROOT%%/redistributable_sources/libcifs/misc.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/cifspdu.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/md4.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/bsd_smbdes.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/interface.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/status_code.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/test_smbdes.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/testconnect -%%SPEC_ROOT%%/redistributable_sources/libcifs/x86_linux.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/des_locl.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/connect.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/sk.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/libcifs.a -%%SPEC_ROOT%%/redistributable_sources/libcifs/bsd_smbencrypt.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/interface.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/convert_smb.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/des_setkey.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/cifssmb.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/des.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/userspace.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/transport.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/convert_smb.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/cifsproto.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/des_enc.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/bsd_smbdes.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/status_code.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/cifsglob.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/testconnect.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/md4.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/misc.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/ntlmssp.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/bsd_smbencrypt.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/connect.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/interface.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/status_code.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/cifssmb.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/podd.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/des_setkey.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/spr.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/userspace.h -%%SPEC_ROOT%%/redistributable_sources/libcifs/userspace.o -%%SPEC_ROOT%%/redistributable_sources/libcifs/UserlandMakefile -%%SPEC_ROOT%%/redistributable_sources/libcifs/convert_smb.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/des_enc.c -%%SPEC_ROOT%%/redistributable_sources/libcifs/transport.c -%%SPEC_ROOT%%/redistributable_sources/jfreechart_license.txt -%%SPEC_ROOT%%/redistributable_sources/jfreechart-1.0.3.tar.gz -%%SPEC_ROOT%%/redistributable_sources/expat_license.txt -%%SPEC_ROOT%%/redistributable_sources/libcifs_license.txt -%%SPEC_ROOT%%/redistributable_sources/expat-2.0.0.tar.gz -%%SPEC_ROOT%%/redistributable_sources/XML-Parser-2.34.tar.gz -%%SPEC_ROOT%%/redistributable_sources/jcommon_license.txt -%%SPEC_ROOT%%/Makefile -%%SPEC_ROOT%%/submit_tools/lib/SimpleObj.pm -%%SPEC_ROOT%%/submit_tools/lib/SimpleMath.pm -%%SPEC_ROOT%%/submit_tools/lib/jcommon-1.0.0.jar -%%SPEC_ROOT%%/submit_tools/lib/ChartGen.jar -%%SPEC_ROOT%%/submit_tools/lib/Subedit.jar -%%SPEC_ROOT%%/submit_tools/lib/Exceptions.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/MANIFEST -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Root.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Expr.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/PerlSAX.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Builder.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Parser.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Step.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Node.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Literal.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Variable.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Boolean.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Function.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Number.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/NodeSet.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Node/Namespace.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Node/Text.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Node/Comment.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Node/Attribute.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Node/Element.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Node/PI.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/LocationPath.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/XPath/XMLParser.pm -%%SPEC_ROOT%%/submit_tools/lib/XML/Makefile.PL -%%SPEC_ROOT%%/submit_tools/lib/XML/examples/test.xml -%%SPEC_ROOT%%/submit_tools/lib/XML/examples/xpath -%%SPEC_ROOT%%/submit_tools/lib/XML/README -%%SPEC_ROOT%%/submit_tools/lib/XML/TODO -%%SPEC_ROOT%%/submit_tools/lib/XML/t/16axisprec_sib.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/01basic.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/02descendant.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/rdf.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/21allnodes.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/22name_select.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/stress.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/04pos.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/03star.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/23func.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/08name.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/27asxml.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/10pipe.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/18axispreceding.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/remove.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/28ancestor2.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/29desc_with_predicate.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/19axisd_or_s.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/15axisfol_sib.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/20axisa_or_s.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/09a_string_length.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/12axisdescendant.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/insert.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/17axisfollowing.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/11axischild.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/13axisparent.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/07count.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/14axisancestor.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/25scope.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/24namespaces.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/30lang.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/05attrib.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/09string_length.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/26predicate.t -%%SPEC_ROOT%%/submit_tools/lib/XML/t/06attrib_val.t -%%SPEC_ROOT%%/submit_tools/lib/jfreechart-1.0.1.jar -%%SPEC_ROOT%%/submit_tools/lib/Html2Text.pm -%%SPEC_ROOT%%/submit_tools/lib/ReportRender.pm -%%SPEC_ROOT%%/submit_tools/lib/HtmlParser.pm -%%SPEC_ROOT%%/submit_tools/README.submit_tools -%%SPEC_ROOT%%/submit_tools/subedit/SFSNode.class -%%SPEC_ROOT%%/submit_tools/subedit/SFSUI.java -%%SPEC_ROOT%%/submit_tools/subedit/SFSWriter.class -%%SPEC_ROOT%%/submit_tools/subedit/SFSUI.class -%%SPEC_ROOT%%/submit_tools/subedit/CLI.java -%%SPEC_ROOT%%/submit_tools/subedit/Subedit.class -%%SPEC_ROOT%%/submit_tools/subedit/SFSReader.java -%%SPEC_ROOT%%/submit_tools/subedit/subedit.pl -%%SPEC_ROOT%%/submit_tools/subedit/CLI.class -%%SPEC_ROOT%%/submit_tools/subedit/SFSProvider.java -%%SPEC_ROOT%%/submit_tools/subedit/SFSElement.class -%%SPEC_ROOT%%/submit_tools/subedit/SFSProvider.class -%%SPEC_ROOT%%/submit_tools/subedit/SFSAttribute.class -%%SPEC_ROOT%%/submit_tools/subedit/SFSElement.java -%%SPEC_ROOT%%/submit_tools/subedit/SFSWriter.java -%%SPEC_ROOT%%/submit_tools/subedit/SFSNode.java -%%SPEC_ROOT%%/submit_tools/subedit/SFSAttribute.java -%%SPEC_ROOT%%/submit_tools/subedit/Subedit.jar -%%SPEC_ROOT%%/submit_tools/subedit/manifest.mf -%%SPEC_ROOT%%/submit_tools/subedit/sfs.4.0.xsd -%%SPEC_ROOT%%/submit_tools/subedit/SFSReader.class -%%SPEC_ROOT%%/submit_tools/subedit/Makefile -%%SPEC_ROOT%%/submit_tools/subedit/Subedit.java -%%SPEC_ROOT%%/submit_tools/examples/example.txt -%%SPEC_ROOT%%/submit_tools/examples/example.cifs.html -%%SPEC_ROOT%%/submit_tools/examples/example_cifs_rc -%%SPEC_ROOT%%/submit_tools/examples/example_config.jpg -%%SPEC_ROOT%%/submit_tools/examples/example_review.txt -%%SPEC_ROOT%%/submit_tools/examples/sfssum.example -%%SPEC_ROOT%%/submit_tools/examples/example.cifs.png -%%SPEC_ROOT%%/submit_tools/examples/example.html -%%SPEC_ROOT%%/submit_tools/examples/example.cifs.xml -%%SPEC_ROOT%%/submit_tools/examples/example.png -%%SPEC_ROOT%%/submit_tools/examples/sfssum.cifs.example -%%SPEC_ROOT%%/submit_tools/examples/example_review.html -%%SPEC_ROOT%%/submit_tools/examples/example.xml -%%SPEC_ROOT%%/submit_tools/examples/example_review.png -%%SPEC_ROOT%%/submit_tools/examples/example.cifs.txt -%%SPEC_ROOT%%/submit_tools/examples/example_rc -%%SPEC_ROOT%%/submit_tools/examples/README -%%SPEC_ROOT%%/submit_tools/specreport.pl -%%SPEC_ROOT%%/submit_tools/specreport/ChartGen.java -%%SPEC_ROOT%%/submit_tools/specreport/HtmlParser.pm -%%SPEC_ROOT%%/submit_tools/specreport/Html2Text.pm -%%SPEC_ROOT%%/submit_tools/specreport/Makefile -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Literal.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/XMLParser.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Boolean.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Number.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/LocationPath.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/NodeSet.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Root.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Function.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Node/Attribute.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Node/Text.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Node/Namespace.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Node/Element.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Node/PI.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Node/Comment.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Variable.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Expr.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/PerlSAX.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Builder.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Parser.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Step.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Node.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/examples/test.xml -%%SPEC_ROOT%%/submit_tools/specreport/XML/examples/xpath -%%SPEC_ROOT%%/submit_tools/specreport/XML/XPath.pm -%%SPEC_ROOT%%/submit_tools/specreport/XML/Makefile.PL -%%SPEC_ROOT%%/submit_tools/specreport/XML/MANIFEST -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/07count.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/25scope.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/14axisancestor.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/28ancestor2.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/15axisfol_sib.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/12axisdescendant.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/30lang.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/02descendant.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/insert.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/19axisd_or_s.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/18axispreceding.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/26predicate.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/17axisfollowing.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/27asxml.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/rdf.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/13axisparent.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/05attrib.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/21allnodes.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/remove.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/09a_string_length.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/10pipe.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/22name_select.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/20axisa_or_s.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/09string_length.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/01basic.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/11axischild.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/stress.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/06attrib_val.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/04pos.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/23func.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/08name.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/03star.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/24namespaces.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/29desc_with_predicate.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/t/16axisprec_sib.t -%%SPEC_ROOT%%/submit_tools/specreport/XML/TODO -%%SPEC_ROOT%%/submit_tools/specreport/XML/README -%%SPEC_ROOT%%/submit_tools/specreport/manifest.mf -%%SPEC_ROOT%%/submit_tools/specreport/ChartGen.class -%%SPEC_ROOT%%/submit_tools/specreport/lib/jcommon-1.0.0.jar -%%SPEC_ROOT%%/submit_tools/specreport/lib/jfreechart-1.0.1.jar -%%SPEC_ROOT%%/submit_tools/specreport/SimpleMath.pm -%%SPEC_ROOT%%/submit_tools/specreport/ChartGen.jar -%%SPEC_ROOT%%/submit_tools/specreport/ReportRender.pm -%%SPEC_ROOT%%/submit_tools/specreport/Exceptions.pm -%%SPEC_ROOT%%/submit_tools/specreport/specreport.pl -%%SPEC_ROOT%%/submit_tools/specreport/SimpleObj.pm -%%SPEC_ROOT%%/submit_tools/dev/schema2table.pl -%%SPEC_ROOT%%/submit_tools/subedit.pl -%%SPEC_ROOT%%/submit_tools/Makefile -%%SPEC_ROOT%%/COPYRIGHT -%%SPEC_ROOT%%/result/.empty -%%SPEC_ROOT%%/manager/TokenMgrError.java -%%SPEC_ROOT%%/manager/SfsReportGenerator.java -%%SPEC_ROOT%%/manager/build -%%SPEC_ROOT%%/manager/InputStreamHandler.class -%%SPEC_ROOT%%/manager/InputStreamHandler.java -%%SPEC_ROOT%%/manager/SfsManager.jar -%%SPEC_ROOT%%/manager/SfsManager.java -%%SPEC_ROOT%%/manager/MergedInputStreamHandler.class -%%SPEC_ROOT%%/manager/SfsParameters.java -%%SPEC_ROOT%%/manager/manifestSfs.mf -%%SPEC_ROOT%%/manager/ConfigParserTokenManager.class -%%SPEC_ROOT%%/manager/SpecInstall.java -%%SPEC_ROOT%%/manager/SpecRemoteInterface.java -%%SPEC_ROOT%%/manager/MergedInputStreamHandler.java -%%SPEC_ROOT%%/manager/SpecRemote_Stub.class -%%SPEC_ROOT%%/manager/ReportGenerator.java -%%SPEC_ROOT%%/manager/sfs_nfs_rc -%%SPEC_ROOT%%/manager/startup_windows.vbs -%%SPEC_ROOT%%/manager/README -%%SPEC_ROOT%%/manager/Manager.class -%%SPEC_ROOT%%/manager/SpecInstall.class -%%SPEC_ROOT%%/manager/SpecRemote.class -%%SPEC_ROOT%%/manager/SpecRemote.java -%%SPEC_ROOT%%/manager/ConfigParser.jj -%%SPEC_ROOT%%/manager/ConfigParser.java -%%SPEC_ROOT%%/manager/startup_unix.sh -%%SPEC_ROOT%%/manager/SfsReportGenerator.class -%%SPEC_ROOT%%/manager/Token.java -%%SPEC_ROOT%%/manager/Manager.java -%%SPEC_ROOT%%/manager/java.policy -%%SPEC_ROOT%%/manager/ConfigParserConstants.java -%%SPEC_ROOT%%/manager/javacc-3.2/LICENSE -%%SPEC_ROOT%%/manager/javacc-3.2/bin/javacc -%%SPEC_ROOT%%/manager/javacc-3.2/bin/jjtree.bat -%%SPEC_ROOT%%/manager/javacc-3.2/bin/javacc.bat -%%SPEC_ROOT%%/manager/javacc-3.2/bin/jjdoc -%%SPEC_ROOT%%/manager/javacc-3.2/bin/jjdoc.bat -%%SPEC_ROOT%%/manager/javacc-3.2/bin/lib/javacc.jar -%%SPEC_ROOT%%/manager/javacc-3.2/bin/jjtree -%%SPEC_ROOT%%/manager/javacc-3.2/doc/simpleREADME.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/apiroutines.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/index.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/features.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/lexertips.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/lookahead.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/javaccreleasenotes.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/errorrecovery.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/jjtreeintro.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/commandline.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/jjtreeREADME.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/jjdocreleasenotes.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/mailinglist.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/installhelp.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/javaccgrm.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/JJDoc.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/JJTree.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/tokenmanager.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/support.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/docindex.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/jjtreereleasenotes.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/getstarted.html -%%SPEC_ROOT%%/manager/javacc-3.2/doc/CharStream.html -%%SPEC_ROOT%%/manager/ConfigParserConstants.class -%%SPEC_ROOT%%/manager/Parameters.class -%%SPEC_ROOT%%/manager/JavaCharStream.java -%%SPEC_ROOT%%/manager/Token.class -%%SPEC_ROOT%%/manager/Parameters.java -%%SPEC_ROOT%%/manager/sfs_cifs_rc -%%SPEC_ROOT%%/manager/manifestMgr.mf -%%SPEC_ROOT%%/manager/ShutdownThread.java -%%SPEC_ROOT%%/manager/ConfigParserTokenManager.java -%%SPEC_ROOT%%/manager/ReportGenerator.class -%%SPEC_ROOT%%/manager/SfsParameters.class -%%SPEC_ROOT%%/manager/SpecRemoteInterface.class -%%SPEC_ROOT%%/manager/Manager.jar -%%SPEC_ROOT%%/manager/SfsManager.class -%%SPEC_ROOT%%/manager/ParseException.class -%%SPEC_ROOT%%/manager/ShutdownThread.class -%%SPEC_ROOT%%/manager/JavaCharStream.class -%%SPEC_ROOT%%/manager/ParseException.java -%%SPEC_ROOT%%/manager/TokenMgrError.class -%%SPEC_ROOT%%/manager/ConfigParser.class -%%SPEC_ROOT%%/LICENSE.txt -@dirrm %%SPEC_ROOT%%/submit_tools/subedit -@dirrm %%SPEC_ROOT%%/submit_tools/specreport/lib -@dirrm %%SPEC_ROOT%%/submit_tools/specreport/XML/t -@dirrm %%SPEC_ROOT%%/submit_tools/specreport/XML/examples -@dirrm %%SPEC_ROOT%%/submit_tools/specreport/XML/XPath/Node -@dirrm %%SPEC_ROOT%%/submit_tools/specreport/XML/XPath -@dirrm %%SPEC_ROOT%%/submit_tools/specreport/XML -@dirrm %%SPEC_ROOT%%/submit_tools/specreport -@dirrm %%SPEC_ROOT%%/submit_tools/lib/XML/t -@dirrm %%SPEC_ROOT%%/submit_tools/lib/XML/examples -@dirrm %%SPEC_ROOT%%/submit_tools/lib/XML/XPath/Node -@dirrm %%SPEC_ROOT%%/submit_tools/lib/XML/XPath -@dirrm %%SPEC_ROOT%%/submit_tools/lib/XML -@dirrm %%SPEC_ROOT%%/submit_tools/lib -@dirrm %%SPEC_ROOT%%/submit_tools/examples -@dirrm %%SPEC_ROOT%%/submit_tools/dev -@dirrm %%SPEC_ROOT%%/submit_tools -@dirrm %%SPEC_ROOT%%/src/win32/VS2005/win32_portmap -@dirrm %%SPEC_ROOT%%/src/win32/VS2005/sfsnfs3 -@dirrm %%SPEC_ROOT%%/src/win32/VS2005/sfscifs -@dirrm %%SPEC_ROOT%%/src/win32/VS2005/sfs_syncd -@dirrm %%SPEC_ROOT%%/src/win32/VS2005/sfs_prime -@dirrm %%SPEC_ROOT%%/src/win32/VS2005/rpc -@dirrm %%SPEC_ROOT%%/src/win32/VS2005/libcifs -@dirrm %%SPEC_ROOT%%/src/win32/VS2005 -@dirrm %%SPEC_ROOT%%/src/win32 -@dirrm %%SPEC_ROOT%%/src/rpc -@dirrm %%SPEC_ROOT%%/src -@dirrm %%SPEC_ROOT%%/result -@dirrm %%SPEC_ROOT%%/redistributable_sources/libcifs -@dirrm %%SPEC_ROOT%%/redistributable_sources -@dirrm %%SPEC_ROOT%%/manager/javacc-3.2/doc -@dirrm %%SPEC_ROOT%%/manager/javacc-3.2/bin/lib -@dirrm %%SPEC_ROOT%%/manager/javacc-3.2/bin -@dirrm %%SPEC_ROOT%%/manager/javacc-3.2 -@dirrm %%SPEC_ROOT%%/manager -@dirrm %%SPEC_ROOT%%/documents/pdf -@dirrm %%SPEC_ROOT%%/documents/ms-word -@dirrm %%SPEC_ROOT%%/documents/html/SPECsfs2008_users_guide_files -@dirrm %%SPEC_ROOT%%/documents/html/SPECsfs2008_run_rules_files -@dirrm %%SPEC_ROOT%%/documents/html -@dirrm %%SPEC_ROOT%%/documents -@dirrm %%SPEC_ROOT%%/bin -@dirrm %%SPEC_ROOT%% diff --git a/biology/Makefile b/biology/Makefile index 458c72813d4e..14f7b8a61350 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -9,14 +9,12 @@ SUBDIR += babel SUBDIR += biococoa SUBDIR += biojava - SUBDIR += blast SUBDIR += blat SUBDIR += boinc-simap SUBDIR += chemeq SUBDIR += clustalw SUBDIR += consed SUBDIR += crux - SUBDIR += embassy SUBDIR += emboss SUBDIR += fasta SUBDIR += fasta3 @@ -74,7 +72,6 @@ SUBDIR += py-biopython SUBDIR += pycogent SUBDIR += pyfasta - SUBDIR += pymol SUBDIR += python-nexus SUBDIR += recombine SUBDIR += ruby-bio diff --git a/biology/blast/Makefile b/biology/blast/Makefile deleted file mode 100644 index 30fc47cd1ca3..000000000000 --- a/biology/blast/Makefile +++ /dev/null @@ -1,77 +0,0 @@ -# Created by: Fernan Aguero <fernan@iib.unsam.edu.ar> -# $FreeBSD$ - -PORTNAME= wu-blast -PORTVERSION= 2.0 -PORTREVISION= 20060322 # YYYYMMDD -CATEGORIES= biology -MASTER_SITES= # -EXTRACT_SUFX= .tar.Z - -MAINTAINER= ports@FreeBSD.org -COMMENT= WU BLAST, a software package for sequence similarity searches - -BROKEN= Mark as broken: no checksum provided - -DEPRECATED= Rights to BLAST 2.0 (WU-BLAST) have been acquired by Advanced Biocomputing, LLC -EXPIRATION_DATE=2014-09-04 - -RESTRICTED= License does not allow redistribution of binaries. You should first register for the software, which is free for academic use. -ONLY_FOR_ARCHS= i386 amd64 - -NO_BUILD= yes -DOWNLOAD_URL= http://blast.wustl.edu/licensing - -NO_WRKSUBDIR= yes - -PORTDOCS= COPYRIGHT FAQ-Indexing.html HISTORY LICENSE Memory.html \ - README.html parameters.html tabular.html -BINS= blasta gb2fasta gt2fasta memfile nrdb pam patdb \ - pir2fasta sp2fasta xdformat xdget -SCRIPTS= wu-blastall wu-formatdb -BLASTA_LINKS= blastn blastp blastx tblastn tblastx -XDFORMAT_LINKS= setdb pressdb -SUB_FILES= pkg-message - -NO_STAGE= yes -.include <bsd.port.pre.mk> - -.if ${ARCH} == amd64 -DISTNAME= blast${PORTVERSION:S/.0//}.freebsd-6.x-x64 -.else -DISTNAME= blast${PORTVERSION:S/.0//}.freebsd-6.x-i686 -.endif - -.if !exists(${DISTDIR}/${DISTNAME}${EXTRACT_SUFX}) -IGNORE= You must manually fetch ${PORTNAME}${PORTVERSION:S/.0//} for the FreeBSD platform (${DISTNAME}${EXTRACT_SUFX}) from ${DOWNLOAD_URL}, place it in ${DISTDIR} and then run make again -.endif - -do-install: -.for bin in ${BINS} - ${INSTALL_PROGRAM} ${WRKSRC}/${bin} ${PREFIX}/bin -.endfor -.for script in ${SCRIPTS} - ${INSTALL_SCRIPT} ${WRKSRC}/${script} ${PREFIX}/bin -.endfor - ${CHMOD} a-rw,a+x ${PREFIX}/bin/blasta -.for blink in ${BLASTA_LINKS} - @(cd ${PREFIX}/bin && ${LN} -s blasta ${blink}) -.endfor -.for xlink in ${XDFORMAT_LINKS} - @(cd ${PREFIX}/bin && ${LN} -s xdformat ${xlink}) -.endfor -.if ${PORT_OPTIONS:MDOCS} - @${MKDIR} ${DOCSDIR} -.for doc in ${PORTDOCS} - ${INSTALL_MAN} ${WRKSRC}/${doc} ${DOCSDIR} -.endfor -.endif - ${MKDIR} ${DATADIR} - ${CP} -R ${WRKSRC}/matrix ${DATADIR} - ${CP} -R ${WRKSRC}/filter ${DATADIR} - ${CP} ${WRKSRC}/sysblast.sample ${DATADIR} - -post-install: - @${CAT} ${PKGMESSAGE} - -.include <bsd.port.post.mk> diff --git a/biology/blast/distinfo b/biology/blast/distinfo deleted file mode 100644 index 6d040eaf212e..000000000000 --- a/biology/blast/distinfo +++ /dev/null @@ -1,2 +0,0 @@ -SHA256 (blast2.freebsd-6.x-i686.tar.Z) = IGNORE -SHA256 (blast2.freebsd-6.x-x64.tar.Z) = IGNORE diff --git a/biology/blast/files/pkg-message.in b/biology/blast/files/pkg-message.in deleted file mode 100644 index c2fa0c29be37..000000000000 --- a/biology/blast/files/pkg-message.in +++ /dev/null @@ -1,15 +0,0 @@ -====================================================================== - -A sample configuration file has been installed in %%DATADIR%% and named -sysblast.sample. Edit it to suit your needs, rename it to 'sysblast' and -place it under /etc so that it can be recognized at runtime by the blast -executable. - -Matrix files and filter executables have been placed in -%%DATADIR%%/matrix and %%DATADIR%%/filter, respectively. -You should set environment variables WUBLASTMAT and WUBLASTFILTER -(pointing to the respective directories) so that the blast executable -can find them. - -====================================================================== - diff --git a/biology/blast/pkg-descr b/biology/blast/pkg-descr deleted file mode 100644 index 902e6fbcb5be..000000000000 --- a/biology/blast/pkg-descr +++ /dev/null @@ -1,18 +0,0 @@ -Washington University BLAST (WU BLAST) version 2.0 is a powerful -software package for gene and protein identification, using sensitive, -selective and rapid similarity searches of protein and nucleotide -sequence databases. WU BLAST 2.0 builds upon WU BLAST 1.4, which in turn -was based on the public domain NCBI BLAST version 1.4. While NCBI BLAST -and WU BLAST 1.4 are in the public domain, WU BLAST 2.0 contains -significant new features and extended capabilities, the development of -which began in late 1994, at Washington University in Saint Louis. First -released in May 1996, or more than a year ahead of the NCBI, WU BLAST -2.0 is the original gapped BLAST with statistics and is known for -setting higher standards for sensitivity, speed, correctness and -accuracy, scalability and reliability than competing programs and -implementations. WU BLAST is neither a re-hashed nor "Mac-ified" version -of NCBI BLAST, although WU BLAST in many ways is easier to use. WU BLAST -essentially shares no code with NCBI BLAST, except for portions that -both packages derived from ungapped NCBI BLAST 1.4. - -WWW: http://blast.wustl.edu diff --git a/biology/blast/pkg-plist b/biology/blast/pkg-plist deleted file mode 100644 index 0933560e1e2e..000000000000 --- a/biology/blast/pkg-plist +++ /dev/null @@ -1,219 +0,0 @@ -bin/blasta -bin/gb2fasta -bin/gt2fasta -bin/memfile -bin/nrdb -bin/pam -bin/patdb -bin/pir2fasta -bin/sp2fasta -bin/xdformat -bin/xdget -bin/wu-blastall -bin/wu-formatdb -bin/blastn -bin/blastp -bin/blastx -bin/tblastn -bin/tblastx -bin/setdb -bin/pressdb -%%PORTDOCS%%%%DOCSDIR%%/COPYRIGHT -%%PORTDOCS%%%%DOCSDIR%%/FAQ-Indexing.html -%%PORTDOCS%%%%DOCSDIR%%/HISTORY -%%PORTDOCS%%%%DOCSDIR%%/LICENSE -%%PORTDOCS%%%%DOCSDIR%%/Memory.html -%%PORTDOCS%%%%DOCSDIR%%/README.html -%%PORTDOCS%%%%DOCSDIR%%/parameters.html -%%PORTDOCS%%%%DOCSDIR%%/parameters.pdf -%%PORTDOCS%%%%DOCSDIR%%/tabular.html -%%DATADIR%%/matrix/aa/nuc.4.4 -%%DATADIR%%/matrix/aa/BLOSUM30 -%%DATADIR%%/matrix/aa/BLOSUM35 -%%DATADIR%%/matrix/aa/BLOSUM40 -%%DATADIR%%/matrix/aa/BLOSUM45 -%%DATADIR%%/matrix/aa/BLOSUM50 -%%DATADIR%%/matrix/aa/BLOSUM55 -%%DATADIR%%/matrix/aa/BLOSUM60 -%%DATADIR%%/matrix/aa/BLOSUM62 -%%DATADIR%%/matrix/aa/BLOSUM65 -%%DATADIR%%/matrix/aa/BLOSUM70 -%%DATADIR%%/matrix/aa/BLOSUM75 -%%DATADIR%%/matrix/aa/BLOSUM80 -%%DATADIR%%/matrix/aa/BLOSUM85 -%%DATADIR%%/matrix/aa/BLOSUM90 -%%DATADIR%%/matrix/aa/BLOSUMN -%%DATADIR%%/matrix/aa/blosum100 -%%DATADIR%%/matrix/aa/blosum30 -%%DATADIR%%/matrix/aa/blosum35 -%%DATADIR%%/matrix/aa/blosum40 -%%DATADIR%%/matrix/aa/blosum45 -%%DATADIR%%/matrix/aa/blosum50 -%%DATADIR%%/matrix/aa/blosum55 -%%DATADIR%%/matrix/aa/blosum60 -%%DATADIR%%/matrix/aa/blosumn -%%DATADIR%%/matrix/aa/blosum62 -%%DATADIR%%/matrix/aa/blosum65 -%%DATADIR%%/matrix/aa/blosum70 -%%DATADIR%%/matrix/aa/blosum75 -%%DATADIR%%/matrix/aa/blosum80 -%%DATADIR%%/matrix/aa/blosum85 -%%DATADIR%%/matrix/aa/DAYHOFF -%%DATADIR%%/matrix/aa/GONNET -%%DATADIR%%/matrix/aa/IDENTITY -%%DATADIR%%/matrix/aa/MATCH -%%DATADIR%%/matrix/aa/PAM10 -%%DATADIR%%/matrix/aa/NUC.4.2 -%%DATADIR%%/matrix/aa/NUC.4.4 -%%DATADIR%%/matrix/aa/PAM100 -%%DATADIR%%/matrix/aa/PAM110 -%%DATADIR%%/matrix/aa/PAM120 -%%DATADIR%%/matrix/aa/PAM130 -%%DATADIR%%/matrix/aa/PAM120.cdi -%%DATADIR%%/matrix/aa/PAM140 -%%DATADIR%%/matrix/aa/PAM150 -%%DATADIR%%/matrix/aa/PAM160 -%%DATADIR%%/matrix/aa/PAM170 -%%DATADIR%%/matrix/aa/PAM160.cdi -%%DATADIR%%/matrix/aa/PAM180 -%%DATADIR%%/matrix/aa/PAM190 -%%DATADIR%%/matrix/aa/PAM20 -%%DATADIR%%/matrix/aa/PAM200 -%%DATADIR%%/matrix/aa/PAM200.cdi -%%DATADIR%%/matrix/aa/PAM210 -%%DATADIR%%/matrix/aa/PAM220 -%%DATADIR%%/matrix/aa/PAM230 -%%DATADIR%%/matrix/aa/PAM240 -%%DATADIR%%/matrix/aa/PAM250 -%%DATADIR%%/matrix/aa/PAM250.cdi -%%DATADIR%%/matrix/aa/PAM260 -%%DATADIR%%/matrix/aa/PAM270 -%%DATADIR%%/matrix/aa/PAM280 -%%DATADIR%%/matrix/aa/PAM290 -%%DATADIR%%/matrix/aa/PAM30 -%%DATADIR%%/matrix/aa/PAM300 -%%DATADIR%%/matrix/aa/PAM310 -%%DATADIR%%/matrix/aa/PAM320 -%%DATADIR%%/matrix/aa/PAM330 -%%DATADIR%%/matrix/aa/PAM340 -%%DATADIR%%/matrix/aa/PAM350 -%%DATADIR%%/matrix/aa/PAM360 -%%DATADIR%%/matrix/aa/PAM370 -%%DATADIR%%/matrix/aa/PAM380 -%%DATADIR%%/matrix/aa/PAM390 -%%DATADIR%%/matrix/aa/PAM40 -%%DATADIR%%/matrix/aa/PAM40.cdi -%%DATADIR%%/matrix/aa/PAM400 -%%DATADIR%%/matrix/aa/PAM410 -%%DATADIR%%/matrix/aa/PAM420 -%%DATADIR%%/matrix/aa/PAM430 -%%DATADIR%%/matrix/aa/PAM440 -%%DATADIR%%/matrix/aa/PAM450 -%%DATADIR%%/matrix/aa/PAM460 -%%DATADIR%%/matrix/aa/PAM470 -%%DATADIR%%/matrix/aa/PAM480 -%%DATADIR%%/matrix/aa/PAM490 -%%DATADIR%%/matrix/aa/PAM50 -%%DATADIR%%/matrix/aa/PAM500 -%%DATADIR%%/matrix/aa/PAM60 -%%DATADIR%%/matrix/aa/PAM70 -%%DATADIR%%/matrix/aa/PAM80 -%%DATADIR%%/matrix/aa/PAM80.cdi -%%DATADIR%%/matrix/aa/PAM90 -%%DATADIR%%/matrix/aa/blosum90 -%%DATADIR%%/matrix/aa/pam120.cdi -%%DATADIR%%/matrix/aa/pam160.cdi -%%DATADIR%%/matrix/aa/dayhoff -%%DATADIR%%/matrix/aa/gonnet -%%DATADIR%%/matrix/aa/identity -%%DATADIR%%/matrix/aa/match -%%DATADIR%%/matrix/aa/pam10 -%%DATADIR%%/matrix/aa/pam100 -%%DATADIR%%/matrix/aa/pam110 -%%DATADIR%%/matrix/aa/pam120 -%%DATADIR%%/matrix/aa/pam130 -%%DATADIR%%/matrix/aa/pam140 -%%DATADIR%%/matrix/aa/pam150 -%%DATADIR%%/matrix/aa/pam160 -%%DATADIR%%/matrix/aa/pam170 -%%DATADIR%%/matrix/aa/pam180 -%%DATADIR%%/matrix/aa/pam190 -%%DATADIR%%/matrix/aa/pam20 -%%DATADIR%%/matrix/aa/pam200 -%%DATADIR%%/matrix/aa/pam250.cdi -%%DATADIR%%/matrix/aa/pam210 -%%DATADIR%%/matrix/aa/pam220 -%%DATADIR%%/matrix/aa/pam230 -%%DATADIR%%/matrix/aa/pam240 -%%DATADIR%%/matrix/aa/pam250 -%%DATADIR%%/matrix/aa/pam40.cdi -%%DATADIR%%/matrix/aa/pam260 -%%DATADIR%%/matrix/aa/pam270 -%%DATADIR%%/matrix/aa/pam280 -%%DATADIR%%/matrix/aa/pam290 -%%DATADIR%%/matrix/aa/pam30 -%%DATADIR%%/matrix/aa/pam300 -%%DATADIR%%/matrix/aa/pam310 -%%DATADIR%%/matrix/aa/pam320 -%%DATADIR%%/matrix/aa/pam330 -%%DATADIR%%/matrix/aa/pam340 -%%DATADIR%%/matrix/aa/pam350 -%%DATADIR%%/matrix/aa/pam360 -%%DATADIR%%/matrix/aa/pam370 -%%DATADIR%%/matrix/aa/pam380 -%%DATADIR%%/matrix/aa/pam390 -%%DATADIR%%/matrix/aa/pam40 -%%DATADIR%%/matrix/aa/pam80.cdi -%%DATADIR%%/matrix/aa/pam400 -%%DATADIR%%/matrix/aa/pam410 -%%DATADIR%%/matrix/aa/pam420 -%%DATADIR%%/matrix/aa/pam430 -%%DATADIR%%/matrix/aa/pam440 -%%DATADIR%%/matrix/aa/pam450 -%%DATADIR%%/matrix/aa/pam460 -%%DATADIR%%/matrix/aa/pam470 -%%DATADIR%%/matrix/aa/pam480 -%%DATADIR%%/matrix/aa/pam490 -%%DATADIR%%/matrix/aa/pam50 -%%DATADIR%%/matrix/aa/pam500 -%%DATADIR%%/matrix/aa/pam60 -%%DATADIR%%/matrix/aa/pam70 -%%DATADIR%%/matrix/aa/pam80 -%%DATADIR%%/matrix/aa/pam90 -%%DATADIR%%/matrix/aa/pam200.cdi -%%DATADIR%%/matrix/aa/PHAT_T70_B66 -%%DATADIR%%/matrix/aa/PHAT_T75_B73 -%%DATADIR%%/matrix/aa/PHAT_T80_B78 -%%DATADIR%%/matrix/aa/PHAT_T85_B82 -%%DATADIR%%/matrix/aa/phat_t70_b66 -%%DATADIR%%/matrix/aa/phat_t75_b73 -%%DATADIR%%/matrix/aa/phat_t80_b78 -%%DATADIR%%/matrix/aa/phat_t85_b82 -%%DATADIR%%/matrix/aa/nuc.4.2 -%%DATADIR%%/matrix/aa/BLOSUM100 -%%DATADIR%%/matrix/nt/PUPY.4.4 -%%DATADIR%%/matrix/nt/IDENTITY.4.2 -%%DATADIR%%/matrix/nt/IDENTITY.4.4 -%%DATADIR%%/matrix/nt/identity.4.2 -%%DATADIR%%/matrix/nt/pupy.4.2 -%%DATADIR%%/matrix/nt/pupy.4.4 -%%DATADIR%%/matrix/nt/PUPY.4.2 -%%DATADIR%%/matrix/nt/identity.4.4 -%%DATADIR%%/matrix/README -%%DATADIR%%/filter/seg -%%DATADIR%%/filter/seg+xnu -%%DATADIR%%/filter/xnu+seg -%%DATADIR%%/filter/nseg -%%DATADIR%%/filter/dust -%%DATADIR%%/filter/nmerge -%%DATADIR%%/filter/xnu -%%DATADIR%%/filter/pmerge -%%DATADIR%%/filter/pseg -%%DATADIR%%/filter/README -%%DATADIR%%/sysblast.sample -%%PORTDOCS%%@dirrm %%DOCSDIR%% -@dirrm %%DATADIR%%/matrix/aa -@dirrm %%DATADIR%%/matrix/nt -@dirrm %%DATADIR%%/matrix -@dirrm %%DATADIR%%/filter -@dirrm %%DATADIR%% diff --git a/biology/embassy/Makefile b/biology/embassy/Makefile deleted file mode 100644 index 1655a08677b5..000000000000 --- a/biology/embassy/Makefile +++ /dev/null @@ -1,131 +0,0 @@ -# Created by: Fernan Aguero <fernan@iib.unsamn.edu.ar> -# $FreeBSD$ - -PORTNAME= embassy -PORTVERSION= 6.2.0 -PORTREVISION= 2 -CATEGORIES= biology -MASTER_SITES= ftp://emboss.open-bio.org/pub/EMBOSS/ -DIST_SUBDIR= emboss - -MAINTAINER= ports@FreeBSD.org -COMMENT= Collection of contributed EMBOSS applications - -BROKEN= does not fetch - -LIB_DEPENDS= libnucleus.so:${PORTSDIR}/biology/emboss - -PREFIX?= ${LOCALBASE}/emboss -NO_MTREE= yes -USE_SUBMAKE= yes -USES= iconv gmake motif -GNU_CONFIGURE= yes -USE_XORG= x11 -USE_LDCONFIG= yes - -OPTIONS_DEFINE= DOMAINATRIX DOMALIGN DOMSEARCH SIGNATURE STRUCTURE \ - EMNU ESIM4 HMMER MEMENEW MSE MYEMBOSS PHYLIPNEW TOPO \ - VIENNA MIRA IPRSCAN CBSTOOLS - -DOMAINATRIX_DESC= Protein domain apps -DOMALIGN_DESC= Protein domain apps -DOMSEARCH_DESC= Protein domain apps -SIGNATURE_DESC= Protein domain apps -STRUCTURE_DESC= Protein domain apps -EMNU_DESC= EMBOSS simple menu -ESIM4_DESC= Align cDNA/EST to genome -HMMER_DESC= HMM alignment and searches -MEMENEW_DESC= Motif detection -MSE_DESC= A multiple sequence screen editor -MYEMBOSS_DESC= Examples for developers of EMBOSS apps -PHYLIPNEW_DESC= Phylogeny inference -TOPO_DESC= Transmembrane display -VIENNA_DESC= RNA folding -MIRA_DESC= Whole Genome shotgun and EST assembler -IPRSCAN_DESC= InterPro scan -CBSTOOLS_DESC= CBS Tools - -OPTIONS_DEFAULT= DOMAINATRIX DOMALIGN DOMSEARCH SIGNATURE STRUCTURE \ - EMNU ESIM4 HMMER MEMENEW MSE MYEMBOSS PHYLIPNEW TOPO \ - VIENNA MIRA IPRSCAN CBSTOOLS - -CPPFLAGS+= -I${PREFIX}/include -I${LOCALBASE}/include -I${LOCALBASE}/emboss/include -LDFLAGS+= -L${PREFIX}/lib -L${LOCALBASE}/lib -L${LOCALBASE}/emboss/lib - -CONFIGURE_ENV= CPPFLAGS="${CPPFLAGS}" LDFLAGS="${LDFLAGS}" - -EMBASSY_WRKDIR= ${WRKSRC}/EMBASSY -DOMAINATRIX_VERSION= 0.1.0 -EMNU_VERSION= 1.05 -ESIM4_VERSION= 1.0.0 -HMMER_VERSION= 2.3.2 -MEMENEW_VERSION= 4.0.0 -MSE_VERSION= 3.0.0 -TOPO_VERSION= 2.0.0 -PHYLIPNEW_VERSION= 3.69 -DOMALIGN_VERSION= 0.1.0 -DOMSEARCH_VERSION= 0.1.0 -SIGNATURE_VERSION= 0.1.0 -STRUCTURE_VERSION= 0.1.0 -MYEMBOSS_VERSION= 6.2.0 -VIENNA_VERSION= 1.7.2 -MIRA_VERSION= 2.8.2 -IPRSCAN_VERSION= 4.3.1 -CBSTOOLS_VERSION= 1.0.0 -EMBASSY_APPS= DOMAINATRIX EMNU ESIM4 HMMER MEMENEW MSE PHYLIPNEW \ - TOPO DOMALIGN DOMSEARCH SIGNATURE STRUCTURE MYEMBOSS \ - VIENNA MIRA IPRSCAN CBSTOOLS - -NO_STAGE= yes -.include <bsd.port.options.mk> - -.for app in ${EMBASSY_APPS} -.if ${PORT_OPTIONS:M${app}} -APPLIST+= ${app} -${app}_WRKSRC= ${EMBASSY_WRKDIR}/${app}-${${app}_VERSION} -${app}_DISTFILE=${app}-${${app}_VERSION}${EXTRACT_SUFX} -DISTFILES+= ${${app}_DISTFILE} -PLIST_${app}= "" -.else -PLIST_${app}= "@comment " -.endif -PLIST_SUB+= PLIST_${app}=${PLIST_${app}} -.endfor - -do-extract: -.for app in ${APPLIST} - @ ${MKDIR} ${EMBASSY_WRKDIR} - @ cd ${EMBASSY_WRKDIR} && ${TAR} ${EXTRACT_BEFORE_ARGS} \ - ${_DISTDIR}/${${app}_DISTFILE} ${EXTRACT_AFTER_ARGS} - @ if [ `id -u` = 0 ]; then \ - ${CHMOD} -R ug-s ${${app}_WRKSRC}; \ - ${CHOWN} -R 0:0 ${${app}_WRKSRC}; \ - fi -.endfor - -post-extract: - @${REINPLACE_CMD} -e 's#emboss_doc##g' ${EMBASSY_WRKDIR}/MIRA-2.8.2/Makefile.in - -post-patch: - @${FIND} ${WRKSRC} -name configure | ${XARGS} ${REINPLACE_CMD} -e 's|echo aout|echo elf|' - -do-configure: -.for app in ${APPLIST} - @ cd ${${app}_WRKSRC} && \ - ${SETENV} ${CONFIGURE_ENV} ./${CONFIGURE_SCRIPT} ${CONFIGURE_ARGS} -.endfor - -do-build: -.for app in ${APPLIST} - @ cd ${${app}_WRKSRC} && \ - ${SETENV} ${MAKE_ENV} ${MAKE_CMD} ${MAKE_FLAGS} ${MAKEFILE} ${MAKE_ARGS} -.endfor - -do-install: -.for app in ${APPLIST} - @ cd ${${app}_WRKSRC} && \ - ${SETENV} ${MAKE_ENV} ${MAKE_CMD} ${MAKE_FLAGS} ${MAKEFILE} \ - ${MAKE_ARGS} ${INSTALL_TARGET} -.endfor - -.include <bsd.port.mk> diff --git a/biology/embassy/distinfo b/biology/embassy/distinfo deleted file mode 100644 index c2a406355c43..000000000000 --- a/biology/embassy/distinfo +++ /dev/null @@ -1,34 +0,0 @@ -SHA256 (emboss/DOMAINATRIX-0.1.0.tar.gz) = 53b1633d8a4fec4335ffe96fff309ef2e61b38140dad916b042522e1a48d5e02 -SIZE (emboss/DOMAINATRIX-0.1.0.tar.gz) = 407290 -SHA256 (emboss/EMNU-1.05.tar.gz) = ccad2f9572b2667b2522e47aa8256b2f17e33a31f74f75991424af0c49ca651d -SIZE (emboss/EMNU-1.05.tar.gz) = 368599 -SHA256 (emboss/ESIM4-1.0.0.tar.gz) = 8c02b53105f9bb95fd0acda15133ad4ac736e720df93c06ffaa6fe54b9baad10 -SIZE (emboss/ESIM4-1.0.0.tar.gz) = 406757 -SHA256 (emboss/HMMER-2.3.2.tar.gz) = fd60908ffe8fea41259480701d64c3442a6a469945dbe03fdfa5677b1a3dc6a6 -SIZE (emboss/HMMER-2.3.2.tar.gz) = 559938 -SHA256 (emboss/MEMENEW-4.0.0.tar.gz) = f5dab1527612e060e6230f579b3243e0da2da086df7ba0e280d0efbb99d5d973 -SIZE (emboss/MEMENEW-4.0.0.tar.gz) = 507901 -SHA256 (emboss/MSE-3.0.0.tar.gz) = 1fc5f5313cede53ad95122afeb69b4b588f3b564567bff9855a9691b92eea701 -SIZE (emboss/MSE-3.0.0.tar.gz) = 425691 -SHA256 (emboss/PHYLIPNEW-3.69.tar.gz) = ae0fd57a5b87961d12df8579298d5ec02a147d6678ead4b561dff2c57c5dba67 -SIZE (emboss/PHYLIPNEW-3.69.tar.gz) = 1652212 -SHA256 (emboss/TOPO-2.0.0.tar.gz) = 15f1106800ba803e2c5d79dbfa79b5d521e9ed0ca9da0ceaa77e15366613e915 -SIZE (emboss/TOPO-2.0.0.tar.gz) = 377565 -SHA256 (emboss/DOMALIGN-0.1.0.tar.gz) = 33a12d28c16039663467f34d930b2a0a6ab2ef7d987db94fd8ed4abd02b1bf9f -SIZE (emboss/DOMALIGN-0.1.0.tar.gz) = 430542 -SHA256 (emboss/DOMSEARCH-0.1.0.tar.gz) = af2e408dcd29b9330df7c310d64c888f53d225ebb0bb5402237891fdcdea7ce3 -SIZE (emboss/DOMSEARCH-0.1.0.tar.gz) = 447445 -SHA256 (emboss/SIGNATURE-0.1.0.tar.gz) = e24bda9ff60ef9940f603f4c65b7e5673d6b81ef0c19d53b294197e98bb2497c -SIZE (emboss/SIGNATURE-0.1.0.tar.gz) = 559082 -SHA256 (emboss/STRUCTURE-0.1.0.tar.gz) = c555e1fc16b377109a1bef21116bfe0907709fb2f629d7cbb4add455bc871050 -SIZE (emboss/STRUCTURE-0.1.0.tar.gz) = 521708 -SHA256 (emboss/MYEMBOSS-6.2.0.tar.gz) = 13edbea0d11a14f67631a4cf6c69985f42c97383d8182f8815e294be03c5ebae -SIZE (emboss/MYEMBOSS-6.2.0.tar.gz) = 322935 -SHA256 (emboss/VIENNA-1.7.2.tar.gz) = e2288e6a2f4538cce916033208ab12f0ffb8a92bb1d3ab89fae302b785171fb7 -SIZE (emboss/VIENNA-1.7.2.tar.gz) = 649028 -SHA256 (emboss/MIRA-2.8.2.tar.gz) = 9d2a64fdb1b95bb6e2ac280be3352740e9b5f498f2ff17157374a2ca9744601d -SIZE (emboss/MIRA-2.8.2.tar.gz) = 347282 -SHA256 (emboss/IPRSCAN-4.3.1.tar.gz) = 179513e2473dc31e5b6153c29670773e7bceaaf84315156961baf8f1e292a289 -SIZE (emboss/IPRSCAN-4.3.1.tar.gz) = 345907 -SHA256 (emboss/CBSTOOLS-1.0.0.tar.gz) = 100131d86d4efeafbd63fc712c82bf493e9d174f0bc505e37bdd35ffb56182ff -SIZE (emboss/CBSTOOLS-1.0.0.tar.gz) = 385340 diff --git a/biology/embassy/pkg-descr b/biology/embassy/pkg-descr deleted file mode 100644 index 8a04b6c0ec88..000000000000 --- a/biology/embassy/pkg-descr +++ /dev/null @@ -1,14 +0,0 @@ -EMBASSY is a collection of contributed EMBOSS software. From the web -pages: - - "EMBOSS is GPL licensed. The libraries are under the Lesser GPL (LGPL). - Programs which have been included from third parties who have their own - licencing terms are kept apart under the EMBASSY grouping. - - This allows the EMBOSS libraries to link to other software, and only - requires that software to have an LGPL-compatible licence. Phylip, for - example, fits this model. - - But, to the user they do look exactly like EMBOSS aplications." - -WWW: http://emboss.sourceforge.net/apps/#Embassy diff --git a/biology/embassy/pkg-plist b/biology/embassy/pkg-plist deleted file mode 100644 index ff9b9963614d..000000000000 --- a/biology/embassy/pkg-plist +++ /dev/null @@ -1,515 +0,0 @@ -%%PLIST_DOMAINATRIX%%share/EMBOSS/acd/cathparse.acd -%%PLIST_DOMAINATRIX%%share/EMBOSS/acd/domainnr.acd -%%PLIST_DOMAINATRIX%%share/EMBOSS/acd/domainreso.acd -%%PLIST_DOMAINATRIX%%share/EMBOSS/acd/domainseqs.acd -%%PLIST_DOMAINATRIX%%share/EMBOSS/acd/domainsse.acd -%%PLIST_DOMAINATRIX%%share/EMBOSS/acd/scopparse.acd -%%PLIST_DOMAINATRIX%%share/EMBOSS/acd/ssematch.acd -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/cathparse.txt -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainnr.txt -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainreso.txt -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainseqs.txt -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/domainsse.txt -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/scopparse.txt -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/programs/text/ssematch.txt -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/index.html -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/cathparse.html -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/domainnr.html -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/domainreso.html -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/domainseqs.html -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/domainsse.html -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/scopparse.html -%%PLIST_DOMAINATRIX%%share/EMBOSS/doc/html/embassy/domainatrix/ssematch.html -%%PLIST_DOMAINATRIX%%bin/cathparse -%%PLIST_DOMAINATRIX%%bin/domainnr -%%PLIST_DOMAINATRIX%%bin/domainreso -%%PLIST_DOMAINATRIX%%bin/domainseqs -%%PLIST_DOMAINATRIX%%bin/domainsse -%%PLIST_DOMAINATRIX%%bin/scopparse -%%PLIST_DOMAINATRIX%%bin/ssematch -%%PLIST_DOMAINATRIX%%@dirrm share/EMBOSS/doc/html/embassy/domainatrix -%%PLIST_DOMALIGN%%share/EMBOSS/acd/allversusall.acd -%%PLIST_DOMALIGN%%share/EMBOSS/acd/domainalign.acd -%%PLIST_DOMALIGN%%share/EMBOSS/acd/domainrep.acd -%%PLIST_DOMALIGN%%share/EMBOSS/acd/seqalign.acd -%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/allversusall.txt -%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/domainalign.txt -%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/domainrep.txt -%%PLIST_DOMALIGN%%share/EMBOSS/doc/programs/text/seqalign.txt -%%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/index.html -%%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/allversusall.html -%%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/domainalign.html -%%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/domainrep.html -%%PLIST_DOMALIGN%%share/EMBOSS/doc/html/embassy/domalign/seqalign.html -%%PLIST_DOMALIGN%%@dirrm share/EMBOSS/doc/html/embassy/domalign -%%PLIST_DOMALIGN%%bin/allversusall -%%PLIST_DOMALIGN%%bin/domainalign -%%PLIST_DOMALIGN%%bin/domainrep -%%PLIST_DOMALIGN%%bin/seqalign -%%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqnr.acd -%%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqsearch.acd -%%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqfraggle.acd -%%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqsort.acd -%%PLIST_DOMSEARCH%%share/EMBOSS/acd/seqwords.acd -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqfraggle.txt -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqnr.txt -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqsearch.txt -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqsort.txt -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/programs/text/seqwords.txt -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/index.html -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqfraggle.html -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqnr.html -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqsearch.html -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqsort.html -%%PLIST_DOMSEARCH%%share/EMBOSS/doc/html/embassy/domsearch/seqwords.html -%%PLIST_DOMSEARCH%%@dirrm share/EMBOSS/doc/html/embassy/domsearch -%%PLIST_DOMSEARCH%%bin/seqnr -%%PLIST_DOMSEARCH%%bin/seqsearch -%%PLIST_DOMSEARCH%%bin/seqfraggle -%%PLIST_DOMSEARCH%%bin/seqsort -%%PLIST_DOMSEARCH%%bin/seqwords -%%PLIST_SIGNATURE%%share/EMBOSS/acd/libgen.acd -%%PLIST_SIGNATURE%%share/EMBOSS/acd/matgen3d.acd -%%PLIST_SIGNATURE%%share/EMBOSS/acd/rocplot.acd -%%PLIST_SIGNATURE%%share/EMBOSS/acd/rocon.acd -%%PLIST_SIGNATURE%%share/EMBOSS/acd/siggen.acd -%%PLIST_SIGNATURE%%share/EMBOSS/acd/siggenlig.acd -%%PLIST_SIGNATURE%%share/EMBOSS/acd/sigscan.acd -%%PLIST_SIGNATURE%%share/EMBOSS/acd/sigscanlig.acd -%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/libgen.txt -%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/matgen3d.txt -%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/rocon.txt -%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/rocplot.txt -%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/siggen.txt -%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/siggenlig.txt -%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/sigscan.txt -%%PLIST_SIGNATURE%%share/EMBOSS/doc/programs/text/sigscanlig.txt -%%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/index.html -%%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/libgen.html -%%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/matgen3d.html -%%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/rocon.html -%%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/rocplot.html -%%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/siggen.html -%%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/siggenlig.html -%%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/sigscan.html -%%PLIST_SIGNATURE%%share/EMBOSS/doc/html/embassy/signature/sigscanlig.html -%%PLIST_SIGNATURE%%@dirrm share/EMBOSS/doc/html/embassy/signature -%%PLIST_SIGNATURE%%bin/libgen -%%PLIST_SIGNATURE%%bin/matgen3d -%%PLIST_SIGNATURE%%bin/rocplot -%%PLIST_SIGNATURE%%bin/rocon -%%PLIST_SIGNATURE%%bin/siggen -%%PLIST_SIGNATURE%%bin/siggenlig -%%PLIST_SIGNATURE%%bin/sigscan -%%PLIST_SIGNATURE%%bin/sigscanlig -%%PLIST_STRUCTURE%%share/EMBOSS/acd/contacts.acd -%%PLIST_STRUCTURE%%share/EMBOSS/acd/domainer.acd -%%PLIST_STRUCTURE%%share/EMBOSS/acd/hetparse.acd -%%PLIST_STRUCTURE%%share/EMBOSS/acd/interface.acd -%%PLIST_STRUCTURE%%share/EMBOSS/acd/pdbparse.acd -%%PLIST_STRUCTURE%%share/EMBOSS/acd/pdbplus.acd -%%PLIST_STRUCTURE%%share/EMBOSS/acd/pdbtosp.acd -%%PLIST_STRUCTURE%%share/EMBOSS/acd/sites.acd -%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/contacts.txt -%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/domainer.txt -%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/hetparse.txt -%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/interface.txt -%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/pdbparse.txt -%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/pdbplus.txt -%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/pdbtosp.txt -%%PLIST_STRUCTURE%%share/EMBOSS/doc/programs/text/sites.txt -%%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/index.html -%%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/contacts.html -%%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/domainer.html -%%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/hetparse.html -%%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/interface.html -%%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/pdbparse.html -%%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/pdbplus.html -%%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/pdbtosp.html -%%PLIST_STRUCTURE%%share/EMBOSS/doc/html/embassy/structure/sites.html -%%PLIST_STRUCTURE%%@dirrm share/EMBOSS/doc/html/embassy/structure -%%PLIST_STRUCTURE%%bin/contacts -%%PLIST_STRUCTURE%%bin/domainer -%%PLIST_STRUCTURE%%bin/hetparse -%%PLIST_STRUCTURE%%bin/interface -%%PLIST_STRUCTURE%%bin/pdbparse -%%PLIST_STRUCTURE%%bin/pdbplus -%%PLIST_STRUCTURE%%bin/pdbtosp -%%PLIST_STRUCTURE%%bin/sites -%%PLIST_EMNU%%share/EMBOSS/acd/emnu.acd -%%PLIST_EMNU%%share/EMBOSS/doc/programs/text/emnu.txt -%%PLIST_EMNU%%share/EMBOSS/doc/html/embassy/emnu/index.html -%%PLIST_EMNU%%share/EMBOSS/doc/html/embassy/emnu/emnu.html -%%PLIST_EMNU%%@dirrm share/EMBOSS/doc/html/embassy/emnu -%%PLIST_EMNU%%bin/emnu -%%PLIST_ESIM4%%share/EMBOSS/acd/esim4.acd -%%PLIST_ESIM4%%share/EMBOSS/doc/programs/text/esim4.txt -%%PLIST_ESIM4%%share/EMBOSS/doc/html/embassy/esim4/index.html -%%PLIST_ESIM4%%share/EMBOSS/doc/html/embassy/esim4/esim4.html -%%PLIST_ESIM4%%@dirrm share/EMBOSS/doc/html/embassy/esim4 -%%PLIST_ESIM4%%bin/esim4 -%%PLIST_HMMER%%share/EMBOSS/acd/ehmmcalibrate.acd -%%PLIST_HMMER%%share/EMBOSS/acd/ehmmconvert.acd -%%PLIST_HMMER%%share/EMBOSS/acd/ehmmemit.acd -%%PLIST_HMMER%%share/EMBOSS/acd/ehmmfetch.acd -%%PLIST_HMMER%%share/EMBOSS/acd/ehmmindex.acd -%%PLIST_HMMER%%share/EMBOSS/acd/ehmmbuild.acd -%%PLIST_HMMER%%share/EMBOSS/acd/ehmmalign.acd -%%PLIST_HMMER%%share/EMBOSS/acd/ehmmpfam.acd -%%PLIST_HMMER%%share/EMBOSS/acd/ehmmsearch.acd -%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmalign.txt -%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmbuild.txt -%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmcalibrate.txt -%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmconvert.txt -%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmemit.txt -%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmfetch.txt -%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmindex.txt -%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmpfam.txt -%%PLIST_HMMER%%share/EMBOSS/doc/programs/text/ehmmsearch.txt -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/index.html -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmalign.html -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmbuild.html -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmcalibrate.html -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmconvert.html -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmemit.html -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmfetch.html -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmindex.html -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmpfam.html -%%PLIST_HMMER%%share/EMBOSS/doc/html/embassy/hmmernew/ehmmsearch.html -%%PLIST_HMMER%%@dirrm share/EMBOSS/doc/html/embassy/hmmernew -%%PLIST_HMMER%%bin/ehmmcalibrate -%%PLIST_HMMER%%bin/ehmmconvert -%%PLIST_HMMER%%bin/ehmmemit -%%PLIST_HMMER%%bin/ehmmfetch -%%PLIST_HMMER%%bin/ehmmindex -%%PLIST_HMMER%%bin/ehmmbuild -%%PLIST_HMMER%%bin/ehmmalign -%%PLIST_HMMER%%bin/ehmmpfam -%%PLIST_HMMER%%bin/ehmmsearch -%%PLIST_MEMENEW%%share/EMBOSS/acd/emast.acd -%%PLIST_MEMENEW%%share/EMBOSS/acd/ememe.acd -%%PLIST_MEMENEW%%share/EMBOSS/acd/ememetext.acd -%%PLIST_MEMENEW%%share/EMBOSS/doc/programs/text/emast.txt -%%PLIST_MEMENEW%%share/EMBOSS/doc/programs/text/ememe.txt -%%PLIST_MEMENEW%%share/EMBOSS/doc/programs/text/ememetext.txt -%%PLIST_MEMENEW%%share/EMBOSS/doc/html/embassy/memenew/index.html -%%PLIST_MEMENEW%%share/EMBOSS/doc/html/embassy/memenew/emast.html -%%PLIST_MEMENEW%%share/EMBOSS/doc/html/embassy/memenew/ememe.html -%%PLIST_MEMENEW%%share/EMBOSS/doc/html/embassy/memenew/ememetext.html -%%PLIST_MEMENEW%%@dirrm share/EMBOSS/doc/html/embassy/memenew -%%PLIST_MEMENEW%%bin/emast -%%PLIST_MEMENEW%%bin/ememe -%%PLIST_MEMENEW%%bin/ememetext -%%PLIST_MSE%%share/EMBOSS/acd/mse.acd -%%PLIST_MSE%%share/EMBOSS/doc/programs/text/mse.txt -%%PLIST_MSE%%share/EMBOSS/doc/html/embassy/mse/index.html -%%PLIST_MSE%%share/EMBOSS/doc/html/embassy/mse/mse.html -%%PLIST_MSE%%@dirrm share/EMBOSS/doc/html/embassy/mse -%%PLIST_MSE%%lib/libckit.so.1 -%%PLIST_MSE%%lib/libckit.so -%%PLIST_MSE%%lib/libckit.la -%%PLIST_MSE%%lib/libckit.a -%%PLIST_MSE%%bin/mse -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fclique.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fconsense.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fcontml.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fcontrast.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdiscboot.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnacomp.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnadist.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnainvar.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnaml.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnamlk.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnamove.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnapars.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdnapenny.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdollop.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdolmove.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdolpenny.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdrawgram.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fdrawtree.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ffactor.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ffitch.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ffreqboot.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fgendist.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fkitsch.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fmix.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fmove.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fneighbor.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fpars.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fpenny.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fproml.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fpromlk.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fprotdist.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fprotpars.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/frestboot.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/frestdist.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/frestml.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fretree.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fseqboot.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/fseqbootall.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ftreedist.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/acd/ftreedistpair.acd -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fclique.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fconsense.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fcontml.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fcontrast.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdiscboot.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdolmove.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/frestdist.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnacomp.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnadist.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnainvar.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnaml.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnamlk.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnamove.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnapars.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdnapenny.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdollop.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdolpenny.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdrawgram.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fdrawtree.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ffactor.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ffitch.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ffreqboot.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fgendist.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fkitsch.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fmix.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fmove.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fneighbor.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fpars.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fpenny.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fproml.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fpromlk.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fprotdist.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fprotpars.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/frestboot.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/frestml.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fretree.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fseqboot.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/fseqbootall.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ftreedist.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/programs/text/ftreedistpair.txt -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/index.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fclique.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fconsense.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fcontml.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fcontrast.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdiscboot.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnamove.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdolmove.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/frestdist.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnacomp.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnadist.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnainvar.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnaml.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnamlk.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnapars.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdnapenny.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdollop.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdolpenny.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdrawgram.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fdrawtree.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ffactor.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ffitch.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ffreqboot.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fmix.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fgendist.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fkitsch.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fmove.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fneighbor.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fpars.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fpenny.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fproml.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fpromlk.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fprotdist.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fprotpars.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/frestboot.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/frestml.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fretree.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fseqboot.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/fseqbootall.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ftreedist.html -%%PLIST_PHYLIPNEW%%share/EMBOSS/doc/html/embassy/phylipnew/ftreedistpair.html -%%PLIST_PHYLIPNEW%%@dirrm share/EMBOSS/doc/html/embassy/phylipnew -%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font1 -%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font2 -%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font3 -%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font4 -%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font5 -%%PLIST_PHYLIPNEW%%share/PHYLIPNEW/data/font6 -%%PLIST_PHYLIPNEW%%@dirrm share/PHYLIPNEW/data -%%PLIST_PHYLIPNEW%%@dirrm share/PHYLIPNEW -%%PLIST_PHYLIPNEW%%bin/fclique -%%PLIST_PHYLIPNEW%%bin/fconsense -%%PLIST_PHYLIPNEW%%bin/fcontml -%%PLIST_PHYLIPNEW%%bin/fcontrast -%%PLIST_PHYLIPNEW%%bin/fdnacomp -%%PLIST_PHYLIPNEW%%bin/fdnadist -%%PLIST_PHYLIPNEW%%bin/fdnainvar -%%PLIST_PHYLIPNEW%%bin/fdnaml -%%PLIST_PHYLIPNEW%%bin/fdnamlk -%%PLIST_PHYLIPNEW%%bin/fdnamove -%%PLIST_PHYLIPNEW%%bin/fdnapars -%%PLIST_PHYLIPNEW%%bin/fdnapenny -%%PLIST_PHYLIPNEW%%bin/fdolmove -%%PLIST_PHYLIPNEW%%bin/fdollop -%%PLIST_PHYLIPNEW%%bin/fdolpenny -%%PLIST_PHYLIPNEW%%bin/fdrawgram -%%PLIST_PHYLIPNEW%%bin/fdrawtree -%%PLIST_PHYLIPNEW%%bin/ffactor -%%PLIST_PHYLIPNEW%%bin/ffitch -%%PLIST_PHYLIPNEW%%bin/fgendist -%%PLIST_PHYLIPNEW%%bin/fkitsch -%%PLIST_PHYLIPNEW%%bin/fmix -%%PLIST_PHYLIPNEW%%bin/fmove -%%PLIST_PHYLIPNEW%%bin/fneighbor -%%PLIST_PHYLIPNEW%%bin/fpars -%%PLIST_PHYLIPNEW%%bin/fpenny -%%PLIST_PHYLIPNEW%%bin/fproml -%%PLIST_PHYLIPNEW%%bin/fpromlk -%%PLIST_PHYLIPNEW%%bin/fprotdist -%%PLIST_PHYLIPNEW%%bin/fprotpars -%%PLIST_PHYLIPNEW%%bin/frestdist -%%PLIST_PHYLIPNEW%%bin/frestml -%%PLIST_PHYLIPNEW%%bin/fretree -%%PLIST_PHYLIPNEW%%bin/fdiscboot -%%PLIST_PHYLIPNEW%%bin/ffreqboot -%%PLIST_PHYLIPNEW%%bin/frestboot -%%PLIST_PHYLIPNEW%%bin/fseqboot -%%PLIST_PHYLIPNEW%%bin/fseqbootall -%%PLIST_PHYLIPNEW%%bin/ftreedist -%%PLIST_PHYLIPNEW%%bin/ftreedistpair -%%PLIST_TOPO%%share/EMBOSS/acd/topo.acd -%%PLIST_TOPO%%share/EMBOSS/doc/programs/text/topo.txt -%%PLIST_TOPO%%share/EMBOSS/doc/html/embassy/topo/index.html -%%PLIST_TOPO%%share/EMBOSS/doc/html/embassy/topo/topo.html -%%PLIST_TOPO%%share/EMBOSS/doc/html/embassy/topo/topo.1.topo.gif -%%PLIST_TOPO%%@dirrm share/EMBOSS/doc/html/embassy/topo -%%PLIST_TOPO%%bin/topo -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnaalifold.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnadistance.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnafoldpf.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnaplot.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnaalifoldpf.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnaduplex.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnaheat.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnasubopt.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnacofold.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnaeval.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnainverse.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnacofoldconc.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnaevalpair.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnalfold.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnacofoldpf.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnafold.acd -%%PLIST_VIENNA%%share/EMBOSS/acd/vrnapaln.acd -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaalifold.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaalifoldpf.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnacofold.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnacofoldconc.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnacofoldpf.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnadistance.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaduplex.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaeval.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaevalpair.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnafold.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnafoldpf.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaheat.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnainverse.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnalfold.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnaplot.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/programs/text/vrnasubopt.txt -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/index.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaalifold.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaalifoldpf.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnacofold.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnacofoldconc.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnacofoldpf.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnadistance.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaduplex.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaeval.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaevalpair.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnafold.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnafoldpf.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaheat.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnainverse.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnalfold.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnaplot.html -%%PLIST_VIENNA%%share/EMBOSS/doc/html/embassy/vienna/vrnasubopt.html -%%PLIST_VIENNA%%@dirrm share/EMBOSS/doc/html/embassy/vienna -%%PLIST_VIENNA%%lib/libviennarna.so.1 -%%PLIST_VIENNA%%lib/libviennarna.so -%%PLIST_VIENNA%%lib/libviennarna.la -%%PLIST_VIENNA%%lib/libviennarna.a -%%PLIST_VIENNA%%bin/vrnaalifold -%%PLIST_VIENNA%%bin/vrnacofoldpf -%%PLIST_VIENNA%%bin/vrnaevalpair -%%PLIST_VIENNA%%bin/vrnainverse -%%PLIST_VIENNA%%bin/vrnaalifoldpf -%%PLIST_VIENNA%%bin/vrnadistance -%%PLIST_VIENNA%%bin/vrnafold -%%PLIST_VIENNA%%bin/vrnalfold -%%PLIST_VIENNA%%bin/vrnacofold -%%PLIST_VIENNA%%bin/vrnaduplex -%%PLIST_VIENNA%%bin/vrnafoldpf -%%PLIST_VIENNA%%bin/vrnaplot -%%PLIST_VIENNA%%bin/vrnacofoldconc -%%PLIST_VIENNA%%bin/vrnaeval -%%PLIST_VIENNA%%bin/vrnaheat -%%PLIST_VIENNA%%bin/vrnasubopt -%%PLIST_MIRA%%share/EMBOSS/acd/emira.acd -%%PLIST_MIRA%%share/EMBOSS/acd/emiraest.acd -%%PLIST_MIRA%%bin/emira -%%PLIST_MIRA%%bin/emiraest -%%PLIST_MYEMBOSS%%share/EMBOSS/doc/html/embassy/myemboss/index.html -%%PLIST_MYEMBOSS%%@dirrm share/EMBOSS/doc/html/embassy/myemboss -%%PLIST_IPRSCAN%%share/EMBOSS/acd/eiprscan.acd -%%PLIST_IPRSCAN%%share/EMBOSS/doc/html/embassy/iprscan/eiprscan.html -%%PLIST_IPRSCAN%%share/EMBOSS/doc/html/embassy/iprscan/index.html -%%PLIST_IPRSCAN%%bin/eiprscan -%%PLIST_IPRSCAN%%@dirrm share/EMBOSS/doc/html/embassy/iprscan -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/elipop.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/eiprscan.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/echlorop.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/enetnglyc.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/enetoglyc.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/enetphos.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/eprop.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/esignalp.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/etmhmm.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/programs/text/eyinoyang.txt -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/index.html -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/echlorop.html -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/elipop.html -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/enetnglyc.html -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/enetoglyc.html -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/enetphos.html -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/eprop.html -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/esignalp.html -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/etmhmm.html -%%PLIST_CBSTOOLS%%share/EMBOSS/doc/html/embassy/cbstools/eyinoyang.html -%%PLIST_CBSTOOLS%%@dirrm share/EMBOSS/doc/html/embassy/cbstools -%%PLIST_CBSTOOLS%%share/EMBOSS/acd/echlorop.acd -%%PLIST_CBSTOOLS%%share/EMBOSS/acd/elipop.acd -%%PLIST_CBSTOOLS%%share/EMBOSS/acd/enetnglyc.acd -%%PLIST_CBSTOOLS%%share/EMBOSS/acd/enetoglyc.acd -%%PLIST_CBSTOOLS%%share/EMBOSS/acd/enetphos.acd -%%PLIST_CBSTOOLS%%share/EMBOSS/acd/eprop.acd -%%PLIST_CBSTOOLS%%share/EMBOSS/acd/esignalp.acd -%%PLIST_CBSTOOLS%%share/EMBOSS/acd/etmhmm.acd -%%PLIST_CBSTOOLS%%share/EMBOSS/acd/eyinoyang.acd -%%PLIST_CBSTOOLS%%bin/esignalp -%%PLIST_CBSTOOLS%%bin/etmhmm -%%PLIST_CBSTOOLS%%bin/enetnglyc -%%PLIST_CBSTOOLS%%bin/enetoglyc -%%PLIST_CBSTOOLS%%bin/enetphos -%%PLIST_CBSTOOLS%%bin/eprop -%%PLIST_CBSTOOLS%%bin/eyinoyang -%%PLIST_CBSTOOLS%%bin/echlorop -%%PLIST_CBSTOOLS%%bin/elipop -@dirrm share/EMBOSS/doc/html/embassy -@dirrmtry share/EMBOSS/doc/html -@dirrmtry share/EMBOSS/doc -@dirrmtry share/EMBOSS -@dirrmtry share diff --git a/biology/pymol/Makefile b/biology/pymol/Makefile deleted file mode 100644 index 11d56ac81f93..000000000000 --- a/biology/pymol/Makefile +++ /dev/null @@ -1,49 +0,0 @@ -# Created by: Nakata Maho <chat95@mbox.kyoto-inet.or.jp> -# $FreeBSD$ - -PORTNAME= pymol -PORTVERSION= ${VERSION}.${SVNREVISION} -PORTREVISION= 3 -CATEGORIES= biology python -MASTER_SITES= ${MASTER_SITE_LOCAL:S|%SUBDIR%|maho/pymol|} - -MAINTAINER= ports@FreeBSD.org -COMMENT= Free and Open-Source molecular modeling system - -BUILD_DEPENDS= ${PYNUMERIC} -RUN_DEPENDS= ${PYNUMERIC} \ - ${PYTHON_SITELIBDIR}/Pmw:${PORTSDIR}/x11-toolkits/py-Pmw -LIB_DEPENDS= libpng15.so:${PORTSDIR}/graphics/png \ - libfreetype.so:${PORTSDIR}/print/freetype2 - -VERSION= 1.5.0.1 -SVNREVISION= 3978 - -WRKSRC= ${WRKDIR}/pymol-${PORTVERSION} -USE_GL= glut glew -USES= gmake tar:bzip2 -USE_PYTHON= yes -PLIST_SUB= PYMOL_VER=${VERSION} PYTHON_VER=${PYTHON_VER} - -NO_STAGE= yes -pre-build: - @${REINPLACE_CMD} -e "s+%%LOCALBASE%%+${LOCALBASE}+" ${WRKSRC}/setup.py - -#do build process actually installs some files, so omitted. -do-build: - -do-install: - @(cd ${BUILD_WRKSRC}; ${SETENV} ${MAKE_ENV} ${PYTHON_CMD} ${PYSETUP} install) - @(cd ${BUILD_WRKSRC}; ${SETENV} ${MAKE_ENV} ${PYTHON_CMD} setup2.py install) - @${INSTALL_SCRIPT} ${WRKSRC}/pymol ${PREFIX}/bin/pymol - -#maintainance -do-fetch-svn: - #svn ls https://pymol.svn.sourceforge.net/svnroot/pymol/tags - #http://pymol.svn.sourceforge.net/viewvc/pymol/trunk/ - ${RM} -rf pymol-${VERSION}.${SVNREVISION} - svn -r ${SVNREVISION} export http://pymol.svn.sourceforge.net/svnroot/pymol/trunk/pymol pymol-${VERSION}.${SVNREVISION} - tar cvfj pymol-${VERSION}.${SVNREVISION}.tar.bz2 pymol-${VERSION}.${SVNREVISION} - scp pymol-${VERSION}.${SVNREVISION}.tar.bz2 freefall.freebsd.org:public_distfiles/pymol/ - -.include <bsd.port.mk> diff --git a/biology/pymol/distinfo b/biology/pymol/distinfo deleted file mode 100644 index 509273172d80..000000000000 --- a/biology/pymol/distinfo +++ /dev/null @@ -1,2 +0,0 @@ -SHA256 (pymol-1.5.0.1.3978.tar.bz2) = 76ff4a6bc126f3fd4dccb62c2345fea3b2a007ecc687d89f7fe21b8f5a0496fc -SIZE (pymol-1.5.0.1.3978.tar.bz2) = 9730397 diff --git a/biology/pymol/files/patch-setup.py b/biology/pymol/files/patch-setup.py deleted file mode 100644 index 105d89d8a732..000000000000 --- a/biology/pymol/files/patch-setup.py +++ /dev/null @@ -1,31 +0,0 @@ ---- setup.py 2012-02-14 04:02:02.000000000 +0900 -+++ setup.py 2012-02-15 13:09:38.000000000 +0900 -@@ -159,7 +159,8 @@ - "layer3", - "layer4", - "layer5", -- "/usr/include/freetype2", -+ "%%LOCALBASE%%/include/freetype2", -+ "%%LOCALBASE%%/include", - # VMD plugin support - # "contrib/uiuc/plugins/include", - # "contrib/uiuc/plugins/molfile_plugin/src", -@@ -181,7 +181,7 @@ - "GLU", - "glut", - "GLEW"] -- lib_dirs = [ "/usr/X11R6/lib64", ] -+ lib_dirs = [ "%%LOCALBASE%%/lib", ] - def_macros = [ ("_PYMOL_MODULE",None), - ("_PYMOL_INLINE",None), - ("_PYMOL_FREETYPE",None), -@@ -201,7 +202,7 @@ - "-funroll-loops", - "-O3", - "-g" ] -- ext_link_args = [] -+ ext_link_args = [ "-L%%LOCALBASE%%/lib" ] - - - distribution = setup ( # Distribution meta-data - diff --git a/biology/pymol/pkg-descr b/biology/pymol/pkg-descr deleted file mode 100644 index dfd8cdfb4d4f..000000000000 --- a/biology/pymol/pkg-descr +++ /dev/null @@ -1,9 +0,0 @@ -PyMOL is a molecular graphics system with an embedded Python interpreter -designed for real-time visualization and rapid generation of -high-quality molecular graphics images and animations. It is fully extensible -and available free to everyone via the "Python" license. -PyMOL can be used to create images and animations with unprecedented ease. -It can also perform many other valuable tasks (such as editing PDB files) -to assist you in your research. - -WWW: http://pymol.sourceforge.net/ diff --git a/biology/pymol/pkg-plist b/biology/pymol/pkg-plist deleted file mode 100644 index fb7eabf7b538..000000000000 --- a/biology/pymol/pkg-plist +++ /dev/null @@ -1,854 +0,0 @@ -bin/pymol -%%PYTHON_SITELIBDIR%%/chempy/__init__.py -%%PYTHON_SITELIBDIR%%/chempy/__init__.pyc -%%PYTHON_SITELIBDIR%%/chempy/arc.py -%%PYTHON_SITELIBDIR%%/chempy/arc.pyc -%%PYTHON_SITELIBDIR%%/chempy/bmin/__init__.py -%%PYTHON_SITELIBDIR%%/chempy/bmin/__init__.pyc -%%PYTHON_SITELIBDIR%%/chempy/bmin/commands.py -%%PYTHON_SITELIBDIR%%/chempy/bmin/commands.pyc -%%PYTHON_SITELIBDIR%%/chempy/bmin/realtime.py -%%PYTHON_SITELIBDIR%%/chempy/bmin/realtime.pyc -%%PYTHON_SITELIBDIR%%/chempy/bmin/state.py -%%PYTHON_SITELIBDIR%%/chempy/bmin/state.pyc -%%PYTHON_SITELIBDIR%%/chempy/bmin/util.py -%%PYTHON_SITELIBDIR%%/chempy/bmin/util.pyc -%%PYTHON_SITELIBDIR%%/chempy/bond_amber.py -%%PYTHON_SITELIBDIR%%/chempy/bond_amber.pyc -%%PYTHON_SITELIBDIR%%/chempy/bond_mmff.py -%%PYTHON_SITELIBDIR%%/chempy/bond_mmff.pyc -%%PYTHON_SITELIBDIR%%/chempy/bonds.py -%%PYTHON_SITELIBDIR%%/chempy/bonds.pyc -%%PYTHON_SITELIBDIR%%/chempy/brick.py -%%PYTHON_SITELIBDIR%%/chempy/brick.pyc -%%PYTHON_SITELIBDIR%%/chempy/cc1.py -%%PYTHON_SITELIBDIR%%/chempy/cc1.pyc -%%PYTHON_SITELIBDIR%%/chempy/cex.py -%%PYTHON_SITELIBDIR%%/chempy/cex.pyc -%%PYTHON_SITELIBDIR%%/chempy/champ/__init__.py -%%PYTHON_SITELIBDIR%%/chempy/champ/__init__.pyc -%%PYTHON_SITELIBDIR%%/chempy/champ/_champ.so -%%PYTHON_SITELIBDIR%%/chempy/champ/amber99.py -%%PYTHON_SITELIBDIR%%/chempy/champ/amber99.pyc -%%PYTHON_SITELIBDIR%%/chempy/champ/assign.py -%%PYTHON_SITELIBDIR%%/chempy/champ/assign.pyc -%%PYTHON_SITELIBDIR%%/chempy/champ/formal_charges.py -%%PYTHON_SITELIBDIR%%/chempy/champ/formal_charges.pyc -%%PYTHON_SITELIBDIR%%/chempy/charge.py -%%PYTHON_SITELIBDIR%%/chempy/charge.pyc -%%PYTHON_SITELIBDIR%%/chempy/cif.py -%%PYTHON_SITELIBDIR%%/chempy/cif.pyc -%%PYTHON_SITELIBDIR%%/chempy/cpv.py -%%PYTHON_SITELIBDIR%%/chempy/cpv.pyc -%%PYTHON_SITELIBDIR%%/chempy/dictdb.py -%%PYTHON_SITELIBDIR%%/chempy/dictdb.pyc -%%PYTHON_SITELIBDIR%%/chempy/fast/__init__.py -%%PYTHON_SITELIBDIR%%/chempy/fast/__init__.pyc -%%PYTHON_SITELIBDIR%%/chempy/fragments/__init__.py -%%PYTHON_SITELIBDIR%%/chempy/fragments/__init__.pyc -%%PYTHON_SITELIBDIR%%/chempy/gamess1.py -%%PYTHON_SITELIBDIR%%/chempy/gamess1.pyc -%%PYTHON_SITELIBDIR%%/chempy/gms.py -%%PYTHON_SITELIBDIR%%/chempy/gms.pyc -%%PYTHON_SITELIBDIR%%/chempy/hetatm.py -%%PYTHON_SITELIBDIR%%/chempy/hetatm.pyc -%%PYTHON_SITELIBDIR%%/chempy/io.py -%%PYTHON_SITELIBDIR%%/chempy/io.pyc -%%PYTHON_SITELIBDIR%%/chempy/lst.py -%%PYTHON_SITELIBDIR%%/chempy/lst.pyc -%%PYTHON_SITELIBDIR%%/chempy/mae.py -%%PYTHON_SITELIBDIR%%/chempy/mae.pyc -%%PYTHON_SITELIBDIR%%/chempy/map.py -%%PYTHON_SITELIBDIR%%/chempy/map.pyc -%%PYTHON_SITELIBDIR%%/chempy/mass.py -%%PYTHON_SITELIBDIR%%/chempy/mass.pyc -%%PYTHON_SITELIBDIR%%/chempy/mmd.py -%%PYTHON_SITELIBDIR%%/chempy/mmd.pyc -%%PYTHON_SITELIBDIR%%/chempy/models.py -%%PYTHON_SITELIBDIR%%/chempy/models.pyc -%%PYTHON_SITELIBDIR%%/chempy/mol.py -%%PYTHON_SITELIBDIR%%/chempy/mol.pyc -%%PYTHON_SITELIBDIR%%/chempy/mol2.py -%%PYTHON_SITELIBDIR%%/chempy/mol2.pyc -%%PYTHON_SITELIBDIR%%/chempy/neighbor.py -%%PYTHON_SITELIBDIR%%/chempy/neighbor.pyc -%%PYTHON_SITELIBDIR%%/chempy/pdb.py -%%PYTHON_SITELIBDIR%%/chempy/pdb.pyc -%%PYTHON_SITELIBDIR%%/chempy/pkl.py -%%PYTHON_SITELIBDIR%%/chempy/pkl.pyc -%%PYTHON_SITELIBDIR%%/chempy/place.py -%%PYTHON_SITELIBDIR%%/chempy/place.pyc -%%PYTHON_SITELIBDIR%%/chempy/protein.py -%%PYTHON_SITELIBDIR%%/chempy/protein.pyc -%%PYTHON_SITELIBDIR%%/chempy/protein_amber.py -%%PYTHON_SITELIBDIR%%/chempy/protein_amber.pyc -%%PYTHON_SITELIBDIR%%/chempy/protein_amber99.py -%%PYTHON_SITELIBDIR%%/chempy/protein_amber99.pyc -%%PYTHON_SITELIBDIR%%/chempy/protein_mmff.py -%%PYTHON_SITELIBDIR%%/chempy/protein_mmff.pyc -%%PYTHON_SITELIBDIR%%/chempy/protein_residues.py -%%PYTHON_SITELIBDIR%%/chempy/protein_residues.pyc -%%PYTHON_SITELIBDIR%%/chempy/sdf.py -%%PYTHON_SITELIBDIR%%/chempy/sdf.pyc -%%PYTHON_SITELIBDIR%%/chempy/solvate.py -%%PYTHON_SITELIBDIR%%/chempy/solvate.pyc -%%PYTHON_SITELIBDIR%%/chempy/tinker/__init__.py -%%PYTHON_SITELIBDIR%%/chempy/tinker/__init__.pyc -%%PYTHON_SITELIBDIR%%/chempy/tinker/amber.py -%%PYTHON_SITELIBDIR%%/chempy/tinker/amber.pyc -%%PYTHON_SITELIBDIR%%/chempy/tinker/keyword.py -%%PYTHON_SITELIBDIR%%/chempy/tinker/keyword.pyc -%%PYTHON_SITELIBDIR%%/chempy/tinker/realtime.py -%%PYTHON_SITELIBDIR%%/chempy/tinker/realtime.pyc -%%PYTHON_SITELIBDIR%%/chempy/tinker/state.py -%%PYTHON_SITELIBDIR%%/chempy/tinker/state.pyc -%%PYTHON_SITELIBDIR%%/chempy/water_amber.py -%%PYTHON_SITELIBDIR%%/chempy/water_amber.pyc -%%PYTHON_SITELIBDIR%%/chempy/water_residues.py -%%PYTHON_SITELIBDIR%%/chempy/water_residues.pyc -%%PYTHON_SITELIBDIR%%/chempy/xyz.py -%%PYTHON_SITELIBDIR%%/chempy/xyz.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/ColorEditor.py -%%PYTHON_SITELIBDIR%%/pmg_tk/ColorEditor.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/Demo.py -%%PYTHON_SITELIBDIR%%/pmg_tk/Demo.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/PMGApp.py -%%PYTHON_SITELIBDIR%%/pmg_tk/PMGApp.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/PyMOLMapLoad.py -%%PYTHON_SITELIBDIR%%/pmg_tk/PyMOLMapLoad.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/SetEditor.py -%%PYTHON_SITELIBDIR%%/pmg_tk/SetEditor.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/Setting.py -%%PYTHON_SITELIBDIR%%/pmg_tk/Setting.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/__init__.py -%%PYTHON_SITELIBDIR%%/pmg_tk/__init__.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/__init__.py -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/__init__.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/ColorMap.py -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/ColorMap.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/ColorRampModel.py -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/ColorRampModel.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/ModalWindow.py -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/ModalWindow.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/SimpleColorChooser.py -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/SimpleColorChooser.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/__init__.py -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/__init__.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/builder.py -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/builder.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/hist.py -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/hist.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/volume.py -%%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal/volume.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/startup/__init__.py -%%PYTHON_SITELIBDIR%%/pmg_tk/startup/__init__.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/startup/apbs_tools.py -%%PYTHON_SITELIBDIR%%/pmg_tk/startup/apbs_tools.pyc -%%PYTHON_SITELIBDIR%%/pmg_tk/startup/remote_pdb_load.py -%%PYTHON_SITELIBDIR%%/pmg_tk/startup/remote_pdb_load.pyc -%%PYTHON_SITELIBDIR%%/pmg_wx/__init__.py -%%PYTHON_SITELIBDIR%%/pmg_wx/__init__.pyc -%%PYTHON_SITELIBDIR%%/pymol-%%PYMOL_VER%%-py%%PYTHON_VER%%.egg-info -%%PYTHON_SITELIBDIR%%/pymol/__init__.py -%%PYTHON_SITELIBDIR%%/pymol/__init__.pyc -%%PYTHON_SITELIBDIR%%/pymol/_cmd.so -%%PYTHON_SITELIBDIR%%/pymol/api.py -%%PYTHON_SITELIBDIR%%/pymol/api.pyc -%%PYTHON_SITELIBDIR%%/pymol/callback.py -%%PYTHON_SITELIBDIR%%/pymol/callback.pyc -%%PYTHON_SITELIBDIR%%/pymol/cgo.py -%%PYTHON_SITELIBDIR%%/pymol/cgo.pyc -%%PYTHON_SITELIBDIR%%/pymol/checking.py -%%PYTHON_SITELIBDIR%%/pymol/checking.pyc -%%PYTHON_SITELIBDIR%%/pymol/cmd.py -%%PYTHON_SITELIBDIR%%/pymol/cmd.pyc -%%PYTHON_SITELIBDIR%%/pymol/colorramping.py -%%PYTHON_SITELIBDIR%%/pymol/colorramping.pyc -%%PYTHON_SITELIBDIR%%/pymol/commanding.py -%%PYTHON_SITELIBDIR%%/pymol/commanding.pyc -%%PYTHON_SITELIBDIR%%/pymol/completing.py -%%PYTHON_SITELIBDIR%%/pymol/completing.pyc -%%PYTHON_SITELIBDIR%%/pymol/computing.py -%%PYTHON_SITELIBDIR%%/pymol/computing.pyc -%%PYTHON_SITELIBDIR%%/pymol/constants.py -%%PYTHON_SITELIBDIR%%/pymol/constants.pyc -%%PYTHON_SITELIBDIR%%/pymol/constants_palette.py -%%PYTHON_SITELIBDIR%%/pymol/constants_palette.pyc -%%PYTHON_SITELIBDIR%%/pymol/contrib/__init__.py -%%PYTHON_SITELIBDIR%%/pymol/contrib/__init__.pyc -%%PYTHON_SITELIBDIR%%/pymol/controlling.py -%%PYTHON_SITELIBDIR%%/pymol/controlling.pyc -%%PYTHON_SITELIBDIR%%/pymol/creating.py -%%PYTHON_SITELIBDIR%%/pymol/creating.pyc -%%PYTHON_SITELIBDIR%%/pymol/editing.py -%%PYTHON_SITELIBDIR%%/pymol/editing.pyc -%%PYTHON_SITELIBDIR%%/pymol/editor.py -%%PYTHON_SITELIBDIR%%/pymol/editor.pyc -%%PYTHON_SITELIBDIR%%/pymol/experimenting.py -%%PYTHON_SITELIBDIR%%/pymol/experimenting.pyc -%%PYTHON_SITELIBDIR%%/pymol/exporting.py -%%PYTHON_SITELIBDIR%%/pymol/exporting.pyc -%%PYTHON_SITELIBDIR%%/pymol/externing.py -%%PYTHON_SITELIBDIR%%/pymol/externing.pyc -%%PYTHON_SITELIBDIR%%/pymol/feedingback.py -%%PYTHON_SITELIBDIR%%/pymol/feedingback.pyc -%%PYTHON_SITELIBDIR%%/pymol/fitting.py -%%PYTHON_SITELIBDIR%%/pymol/fitting.pyc -%%PYTHON_SITELIBDIR%%/pymol/gui.py -%%PYTHON_SITELIBDIR%%/pymol/gui.pyc -%%PYTHON_SITELIBDIR%%/pymol/headering.py -%%PYTHON_SITELIBDIR%%/pymol/headering.pyc -%%PYTHON_SITELIBDIR%%/pymol/helping.py -%%PYTHON_SITELIBDIR%%/pymol/helping.pyc -%%PYTHON_SITELIBDIR%%/pymol/importing.py -%%PYTHON_SITELIBDIR%%/pymol/importing.pyc -%%PYTHON_SITELIBDIR%%/pymol/internal.py -%%PYTHON_SITELIBDIR%%/pymol/internal.pyc -%%PYTHON_SITELIBDIR%%/pymol/invocation.py -%%PYTHON_SITELIBDIR%%/pymol/invocation.pyc -%%PYTHON_SITELIBDIR%%/pymol/keyboard.py -%%PYTHON_SITELIBDIR%%/pymol/keyboard.pyc -%%PYTHON_SITELIBDIR%%/pymol/keywords.py -%%PYTHON_SITELIBDIR%%/pymol/keywords.pyc -%%PYTHON_SITELIBDIR%%/pymol/locking.py -%%PYTHON_SITELIBDIR%%/pymol/locking.pyc -%%PYTHON_SITELIBDIR%%/pymol/m4x.py -%%PYTHON_SITELIBDIR%%/pymol/m4x.pyc -%%PYTHON_SITELIBDIR%%/pymol/menu.py -%%PYTHON_SITELIBDIR%%/pymol/menu.pyc -%%PYTHON_SITELIBDIR%%/pymol/monitoring.py -%%PYTHON_SITELIBDIR%%/pymol/monitoring.pyc -%%PYTHON_SITELIBDIR%%/pymol/movie.py -%%PYTHON_SITELIBDIR%%/pymol/movie.pyc -%%PYTHON_SITELIBDIR%%/pymol/moving.py -%%PYTHON_SITELIBDIR%%/pymol/moving.pyc -%%PYTHON_SITELIBDIR%%/pymol/opengl/__init__.py -%%PYTHON_SITELIBDIR%%/pymol/opengl/__init__.pyc -%%PYTHON_SITELIBDIR%%/pymol/opengl/gl/__init__.py -%%PYTHON_SITELIBDIR%%/pymol/opengl/gl/__init__.pyc -%%PYTHON_SITELIBDIR%%/pymol/opengl/gl/_opengl.so -%%PYTHON_SITELIBDIR%%/pymol/opengl/gl/_opengl_num.so -%%PYTHON_SITELIBDIR%%/pymol/opengl/gl/glconst.py -%%PYTHON_SITELIBDIR%%/pymol/opengl/gl/glconst.pyc -%%PYTHON_SITELIBDIR%%/pymol/opengl/gl/openglutil.so -%%PYTHON_SITELIBDIR%%/pymol/opengl/gl/openglutil_num.so -%%PYTHON_SITELIBDIR%%/pymol/opengl/glu/__init__.py -%%PYTHON_SITELIBDIR%%/pymol/opengl/glu/__init__.pyc -%%PYTHON_SITELIBDIR%%/pymol/opengl/glu/_glu.so -%%PYTHON_SITELIBDIR%%/pymol/opengl/glu/_glu_num.so -%%PYTHON_SITELIBDIR%%/pymol/opengl/glu/gluconst.py -%%PYTHON_SITELIBDIR%%/pymol/opengl/glu/gluconst.pyc -%%PYTHON_SITELIBDIR%%/pymol/opengl/glut/__init__.py -%%PYTHON_SITELIBDIR%%/pymol/opengl/glut/__init__.pyc -%%PYTHON_SITELIBDIR%%/pymol/opengl/glut/_glut.so -%%PYTHON_SITELIBDIR%%/pymol/opengl/glut/glutconst.py -%%PYTHON_SITELIBDIR%%/pymol/opengl/glut/glutconst.pyc -%%PYTHON_SITELIBDIR%%/pymol/parser.py -%%PYTHON_SITELIBDIR%%/pymol/parser.pyc -%%PYTHON_SITELIBDIR%%/pymol/parsing.py -%%PYTHON_SITELIBDIR%%/pymol/parsing.pyc -%%PYTHON_SITELIBDIR%%/pymol/povray.py -%%PYTHON_SITELIBDIR%%/pymol/povray.pyc -%%PYTHON_SITELIBDIR%%/pymol/preset.py -%%PYTHON_SITELIBDIR%%/pymol/preset.pyc -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/LICENSE -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ace.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/acetylene.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ala.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/arg.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/argn.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/asn.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/asp.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/asph.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/benzene.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/benzocycloheptane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/butane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_ala.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_arg.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_argn.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_asn.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_asp.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_asph.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_cys.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_gln.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_glu.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_gluh.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_gly.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_hid.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_hie.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_hip.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_his.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_ile.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_leu.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_lys.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_lysn.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_met.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_phe.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_pro.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_ser.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_thr.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_trp.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_tyr.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ct_val.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/cyanide.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/cyclobutane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/cycloheptane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/cyclohexane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/cyclopentadiene.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/cyclopentane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/cyclopropane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/cys.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ethylene.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/formaldehyde.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/formamide.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/formic.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/gln.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/glu.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/gluh.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/gly.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/hid.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/hie.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/hip.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/his.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ile.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/indane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/leu.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/lys.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/lysn.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/met.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/methane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/methanol.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/napthylene.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nhh.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nitro.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nme.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_ala.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_arg.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_argn.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_asn.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_asp.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_asph.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_cys.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_gln.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_glu.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_gluh.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_gly.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_hid.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_hie.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_hip.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_his.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_ile.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_leu.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_lys.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_lysn.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_met.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_phe.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_pro.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_ser.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_thr.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_trp.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_tyr.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/nt_val.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/peptide.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/phe.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/phosphite.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/pro.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/realtime.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/ser.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/sulfone.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/thr.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/trifluoromethane.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/trp.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/tyr.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments/val.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/sidechains/generate1.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/sidechains/generate2.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/sidechains/sc_bb_dep.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/sidechains/sc_bb_dep.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/sidechains/sc_bb_ind.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/sidechains/sc_bb_ind.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/sidechains/sc_library.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/Makefile.delsci -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/chempy.prm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/make99_simple.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/make_simple.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/parm94.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/parm94_rsm.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/parm96.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/parm96_rsm.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/parm99.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/parm99_simple.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/parm99_wld.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/parm_simple.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker/parm_simple.inp -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/water.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo/1hpv.r3d -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo/1tii.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo/cgo03.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo/il2.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo/pept.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo/pept.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro5.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro5.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro6.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro6.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro65.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro65.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro66.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro66.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro67.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro67.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc3.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc3.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc4.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc4.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc5.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc5.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc6.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc6.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc7.gif -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc7.xbm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/cmyk.png -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/hsv.ppm -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/incentive_splash.png -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/matrices/BLOSUM62 -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/splash.old.png -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/splash.png -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/splash_edu.png -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/cylinder.fs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/cylinder.vs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/cylinder_no_ff.fs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/default.fs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/default.vs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/default_es.fs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/default_es.vs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/default_es2.fs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/default_es2.vs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/shadertext.txt -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/sphere.fs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/sphere.vs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/sphere_arb_fs.fs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/sphere_arb_vs.vs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/spheredirect.vs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/volume.fs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/volume.vs -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/tut/1hpv.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/xray/atomformfactor2.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/xray/atomformfactor5.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/xray/spgbase.dat -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/chempy/generate_amber.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/chempy/generate_mmff.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/area_diff.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/build_peptide.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/contact.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/dali.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/density.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/groel_es.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/multiclip_ray.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/packing.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/packsurf.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/ref_frame.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/ribosome.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/scenes2movie.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/seq_match_sele.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/ss_xfer.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook/symsph.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/brick01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cam2crd.pym -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo02.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo03.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo04.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo05.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo06.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo07.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo08.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo_3Dtext01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo_axes.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo_label_hack.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/cgo_plane.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/chempy_model01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/chempy_model02.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/chempy_model03.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/click_ordered_list.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/count_molecules.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/demo.sdf -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/extend_demo01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/gl01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/gl02.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/gl03.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/hole_vmd_tri.pym -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/importing.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/link_demo.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/membrane.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/mutate01.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/mutate02.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/my_ext_gui.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/particle01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/particle02.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/pick_wiz.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/povray01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/scenes_to_movie01.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/sd_annotate.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/sele_wiz.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/start_pymol.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/syncmol.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/tkwindow.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/webgui01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/webgui02.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/xmlrpc01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel/xmlrpc02.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching/README -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching/launch.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching/launch_demo.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching/launch_no_tk.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching/launch_viewer1.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching/launch_viewer2.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh62.py152.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh70.py152.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh72.py21.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh73.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh80.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh90.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh62.py152.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh70.py152.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh72.py21.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh73.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh80.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh90.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/scripts/metaphorics/alignment.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/scripts/metaphorics/annotate.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/scripts/metaphorics/fedora.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/README -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/cyg -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/1tii.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/3al1.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/3al1.r3d -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/embed01.p1m -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/embed02.p1m -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/embed03.p1m -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/embed04.p1m -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/embed05.p1m -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/embed06.p1m -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/helix_amber.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/il2.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/ligs3d.sdf -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/names.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/odd01.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/odd02.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/pept.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/pept.pkl -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/pept.r3d -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/small01.mol -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/small02.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/small03.mol2 -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/tiny.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat/water.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/headerTest.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B02.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B03.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B04.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B05.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B06.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B07.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B08.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B09.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B10.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/B11.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0001quit.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0010hello.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0020pdb.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0021pdbstr.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0025mol.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0026sdf.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0027mol2.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0030pkl.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0050multi.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0060delete.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0070rep.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0080create.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0100select.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0105names.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0106order.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0140iterate.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0150alter.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0160get.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0170scene.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0180embed.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0181embed.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0200feedback.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0201extend.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0202help_python.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0300session.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0500misc.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0550pseudo.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0600util.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0700odd.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0740multipdb.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C0800matrices.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1000viewing.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1010helping.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1020querying.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1030selecting.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1035wildcards.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1040editing.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1050fitting.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1060controlling.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1070exporting.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1080isomore.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1090coulomb.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1095slice.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1100do.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1110matrix_mode.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1200matrix_maps.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C1300extras.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/C2000returns.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/L0010ccp4read.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/L0020xplorread.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/L0030isomesh.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/L0040isomesh2.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/L0100isomisc.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/L0200electro.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0001new.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0002start.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0010load.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0020multi.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0021multi.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0025view.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0030scene.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0040do.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0041do.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0050session.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0051session.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0052session.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/M0053session.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/T01.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/T02.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/T03.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/T04.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp/U01.pml -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0001quit.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0010hello.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0020pdb.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0020pdb.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0021pdbstr.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0025mol.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0026sdf.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0027mol2.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0030pkl.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0030pkl.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0050multi.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0060delete.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0070rep.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0080create.1.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0080create.2.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0080create.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0100select.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0105names.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0106order.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0140iterate.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0150alter.1.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0150alter.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0160get.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0170scene.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0180embed.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0181embed.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0200feedback.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0201extend.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0202help_python.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0300session.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0500misc.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0550pseudo.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0600util.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700.odd.G.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700.odd.H.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.1.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.2.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.3.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.4.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.5.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.6.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.7.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.8.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.9.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.A.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.B.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.C.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.D.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.E.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.F.pdb -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0700odd.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0740multipdb.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C0800matrices.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1000viewing.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1010helping.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1020querying.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1030selecting.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1035wildcards.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1040editing.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1050fitting.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1060controlling.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1070exporting.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1080isomore.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1090coulomb.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1095slice.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1100do.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1110matrix_mode.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1200matrix_maps.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C1300extras.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/C2000returns.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/L0010ccp4read.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/L0020xplorread.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/L0030isomesh.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/L0040isomesh2.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/L0100isomisc.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/L0200electro.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0001new.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0002start.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0010load.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0020multi.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0021multi.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0025view.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0030scene.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0040do.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0041do.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0050session.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0051session.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0052session.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/M0053session.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/T01.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref/U01.log -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/run -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/show -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/trim.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/vdiff -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/win.py -%%PYTHON_SITELIBDIR%%/pymol/querying.py -%%PYTHON_SITELIBDIR%%/pymol/querying.pyc -%%PYTHON_SITELIBDIR%%/pymol/rpc.py -%%PYTHON_SITELIBDIR%%/pymol/rpc.pyc -%%PYTHON_SITELIBDIR%%/pymol/selecting.py -%%PYTHON_SITELIBDIR%%/pymol/selecting.pyc -%%PYTHON_SITELIBDIR%%/pymol/selector.py -%%PYTHON_SITELIBDIR%%/pymol/selector.pyc -%%PYTHON_SITELIBDIR%%/pymol/setting.py -%%PYTHON_SITELIBDIR%%/pymol/setting.pyc -%%PYTHON_SITELIBDIR%%/pymol/shortcut.py -%%PYTHON_SITELIBDIR%%/pymol/shortcut.pyc -%%PYTHON_SITELIBDIR%%/pymol/util.py -%%PYTHON_SITELIBDIR%%/pymol/util.pyc -%%PYTHON_SITELIBDIR%%/pymol/vfont.py -%%PYTHON_SITELIBDIR%%/pymol/vfont.pyc -%%PYTHON_SITELIBDIR%%/pymol/viewing.py -%%PYTHON_SITELIBDIR%%/pymol/viewing.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/__init__.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/__init__.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/annotation.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/annotation.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/appearance.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/appearance.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/benchmark.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/benchmark.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/box.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/box.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/charge.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/charge.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/cleanup.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/cleanup.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/demo.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/demo.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/density.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/density.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/distance.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/distance.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/dragging.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/dragging.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/fedora.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/fedora.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/filter.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/filter.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/label.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/label.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/measurement.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/measurement.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/message.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/message.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/mutagenesis.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/mutagenesis.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/pair_fit.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/pair_fit.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/pseudoatom.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/pseudoatom.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/renaming.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/renaming.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/sculpting.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/sculpting.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/security.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/security.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/stereodemo.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/stereodemo.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizard/toggle.py -%%PYTHON_SITELIBDIR%%/pymol/wizard/toggle.pyc -%%PYTHON_SITELIBDIR%%/pymol/wizarding.py -%%PYTHON_SITELIBDIR%%/pymol/wizarding.pyc -%%PYTHON_SITELIBDIR%%/pymol/xray.py -%%PYTHON_SITELIBDIR%%/pymol/xray.pyc -%%PYTHON_SITELIBDIR%%/pymol/xwin.py -%%PYTHON_SITELIBDIR%%/pymol/xwin.pyc -%%PYTHON_SITELIBDIR%%/web/__init__.py -%%PYTHON_SITELIBDIR%%/web/__init__.pyc -%%PYTHON_SITELIBDIR%%/web/examples/__init__.py -%%PYTHON_SITELIBDIR%%/web/examples/__init__.pyc -%%PYTHON_SITELIBDIR%%/web/examples/justhttpd.py -%%PYTHON_SITELIBDIR%%/web/examples/justhttpd.pyc -%%PYTHON_SITELIBDIR%%/web/pymolhttpd.py -%%PYTHON_SITELIBDIR%%/web/pymolhttpd.pyc -@dirrm %%PYTHON_SITELIBDIR%%/web/examples -@dirrm %%PYTHON_SITELIBDIR%%/web -@dirrm %%PYTHON_SITELIBDIR%%/pymol/wizard -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/ref -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/inp -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/dat -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/test -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/scripts/metaphorics -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/scripts -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/devel -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/cookbook -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/chempy -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/xray -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/tut -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/matrices -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/tinker -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/sidechains -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy/fragments -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/chempy -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data -@dirrm %%PYTHON_SITELIBDIR%%/pymol/pymol_path -@dirrm %%PYTHON_SITELIBDIR%%/pymol/opengl/glut -@dirrm %%PYTHON_SITELIBDIR%%/pymol/opengl/glu -@dirrm %%PYTHON_SITELIBDIR%%/pymol/opengl/gl -@dirrm %%PYTHON_SITELIBDIR%%/pymol/opengl -@dirrm %%PYTHON_SITELIBDIR%%/pymol/contrib -@dirrm %%PYTHON_SITELIBDIR%%/pymol -@dirrm %%PYTHON_SITELIBDIR%%/pmg_wx -@dirrm %%PYTHON_SITELIBDIR%%/pmg_tk/startup -@dirrm %%PYTHON_SITELIBDIR%%/pmg_tk/skins/normal -@dirrm %%PYTHON_SITELIBDIR%%/pmg_tk/skins -@dirrm %%PYTHON_SITELIBDIR%%/pmg_tk -@dirrm %%PYTHON_SITELIBDIR%%/chempy/tinker -@dirrm %%PYTHON_SITELIBDIR%%/chempy/fragments -@dirrm %%PYTHON_SITELIBDIR%%/chempy/fast -@dirrm %%PYTHON_SITELIBDIR%%/chempy/champ -@dirrm %%PYTHON_SITELIBDIR%%/chempy/bmin -@dirrm %%PYTHON_SITELIBDIR%%/chempy |