diff options
Diffstat (limited to 'biology/adun')
| -rw-r--r-- | biology/adun/Makefile | 31 | ||||
| -rw-r--r-- | biology/adun/distinfo | 6 | ||||
| -rw-r--r-- | biology/adun/files/patch-AdLinkedList.h | 12 | ||||
| -rw-r--r-- | biology/adun/files/patch-AdunLinkedList.m | 14 | ||||
| -rw-r--r-- | biology/adun/files/patch-AdunMemoryManager.h | 22 | ||||
| -rw-r--r-- | biology/adun/files/patch-AdunMemoryManager.m | 266 | ||||
| -rw-r--r-- | biology/adun/files/patch-GNUmakefile | 17 | ||||
| -rw-r--r-- | biology/adun/files/patch-main.m | 23 | ||||
| -rw-r--r-- | biology/adun/pkg-plist | 270 |
9 files changed, 205 insertions, 456 deletions
diff --git a/biology/adun/Makefile b/biology/adun/Makefile index 14e889492e17..23c364e64767 100644 --- a/biology/adun/Makefile +++ b/biology/adun/Makefile @@ -6,13 +6,12 @@ # PORTNAME= adun -PORTVERSION= 0.6 -PORTREVISION= 3 +PORTVERSION= 0.8.2 CATEGORIES= biology gnustep MASTER_SITES= http://download.gna.org/adun/ -DISTNAME= Adun${PORTVERSION} +DISTNAME= Adun-${PORTVERSION} -MAINTAINER= gurkan@phys.ethz.ch +MAINTAINER= dinoex@FreeBSD.org COMMENT= Molecular Simulator for GNUstep LIB_DEPENDS+= gsl.12:${PORTSDIR}/math/gsl @@ -24,22 +23,34 @@ USE_GNUSTEP_BUILD= yes USE_GNUSTEP_INSTALL= yes USE_GNUSTEP_LDCONFIG= ${GNUSTEP_LOCAL_LIBRARIES} -WRKSRC= ${WRKDIR}/Adun -DEFAULT_LIBVERSION2= 0.0 +DEFAULT_LIBVERSION2= 0.11 +DEFAULT_LIBVERSION3= 3.0.1 +DEFAULT_LIBVERSION4= 0.6 +DEFAULT_LIBVERSION5= 0.1 PLIST_SUB+= LIBVERSION2=${DEFAULT_LIBVERSION2} PLIST_SUB+= MAJORLIBVERSION2=${DEFAULT_LIBVERSION2:C/([0-9]).*/\1/1} +PLIST_SUB+= LIBVERSION3=${DEFAULT_LIBVERSION3} +PLIST_SUB+= MAJORLIBVERSION3=${DEFAULT_LIBVERSION3:C/([0-9]).*/\1/1} +PLIST_SUB+= LIBVERSION4=${DEFAULT_LIBVERSION4} +PLIST_SUB+= MAJORLIBVERSION4=${DEFAULT_LIBVERSION4:C/([0-9]).*/\1/1} +PLIST_SUB+= LIBVERSION5=${DEFAULT_LIBVERSION5} +PLIST_SUB+= MAJORLIBVERSION5=${DEFAULT_LIBVERSION5:C/([0-9]).*/\1/1} +ADDITIONAL_CFLAGS= -D__FREEBSD__ +ADDITIONAL_OBJCFLAGS= -D__FREEBSD__ post-patch: - ${REINPLACE_CMD} -e 's|include Defs/|-include Defs/|' \ - ${WRKSRC}/MolTalk/GNUmakefile.preamble - ${REINPLACE_CMD} -e 's|^GNUSTEP_INSTALLATION_DIR|#GNUSTEP_INSTALLATION_DIR|' \ + ${REINPLACE_CMD} -e 's|^GNUSTEP_INSTALLATION_DOMAIN|#GNUSTEP_INSTALLATION_DOMAIN|' \ + ${WRKSRC}/GNUmakefile \ ${WRKSRC}/Tools/GNUmakefile \ ${WRKSRC}/Tools/ResultsConverter/GNUmakefile \ ${WRKSRC}/MolTalk/GNUmakefile.preamble \ ${WRKSRC}/Kernel/GNUmakefile \ ${WRKSRC}/Kernel/AdunKernel/GNUmakefile \ ${WRKSRC}/UL/GNUmakefile \ - ${WRKSRC}/UL/AdunServer/GNUmakefile + ${WRKSRC}/UL/AdunServer/GNUmakefile \ + ${WRKSRC}/UL/ULFramework/GNUmakefile + ${REINPLACE_CMD} -e 's|GNUSTEP_HOME./..GNUSTEP_USER_DIR_TOOLS|GNUSTEP_LOCAL_TOOLS|' \ + ${WRKSRC}/GNUmakefile.postamble .include <bsd.port.pre.mk> diff --git a/biology/adun/distinfo b/biology/adun/distinfo index 8258acfa9228..723528cd81fc 100644 --- a/biology/adun/distinfo +++ b/biology/adun/distinfo @@ -1,3 +1,3 @@ -MD5 (Adun0.6.tar.gz) = 34e35b5314095cef93fc17d40a7701a5 -SHA256 (Adun0.6.tar.gz) = 94acf265be17b86368e2d8c62cd2872e90a8d953ac520756af3272d2593e1203 -SIZE (Adun0.6.tar.gz) = 781286 +MD5 (Adun-0.8.2.tar.gz) = 7b6866bcce8632c849043105213be591 +SHA256 (Adun-0.8.2.tar.gz) = 7086a8adab7e4716683fa6a02ac70b7da705a9862a40fbcdb2ac5d110f045898 +SIZE (Adun-0.8.2.tar.gz) = 998386 diff --git a/biology/adun/files/patch-AdLinkedList.h b/biology/adun/files/patch-AdLinkedList.h new file mode 100644 index 000000000000..62ce6dcba44f --- /dev/null +++ b/biology/adun/files/patch-AdLinkedList.h @@ -0,0 +1,12 @@ +--- Kernel/Base/AdLinkedList.h.orig 2006-11-02 14:42:45.000000000 +0100 ++++ Kernel/Base/AdLinkedList.h 2008-04-29 09:14:45.000000000 +0200 +@@ -25,6 +25,9 @@ + + #include <stdio.h> + #include <stdlib.h> ++#ifdef __FreeBSD__ ++#include <sys/types.h> ++#endif + + //! \brief Element for the linked lists. + /** diff --git a/biology/adun/files/patch-AdunLinkedList.m b/biology/adun/files/patch-AdunLinkedList.m deleted file mode 100644 index 165fbbf6fcb0..000000000000 --- a/biology/adun/files/patch-AdunLinkedList.m +++ /dev/null @@ -1,14 +0,0 @@ ---- Kernel/AdunKernel/Framework/AdunLinkedList.m.orig Tue Jun 13 12:16:44 2006 -+++ Kernel/AdunKernel/Framework/AdunLinkedList.m Sun Nov 5 13:34:01 2006 -@@ -109,7 +109,11 @@ - NSDebugLLog(@"AdListMemoryManagement", @"Creating New Block - There are now %d blocks", block_no); - //On 64 bit machines we should align on a 64 bit boundary - -+#ifndef __FreeBSD__ - posix_memalign((void**)&listPointer, 32, BLOCKSIZE*sizeof(ListElement)); -+#else -+ listPointer = malloc(BLOCKSIZE*sizeof(ListElement)); -+#endif - blocks[block_no-1] = listPointer; - - return blocks[block_no-1]; diff --git a/biology/adun/files/patch-AdunMemoryManager.h b/biology/adun/files/patch-AdunMemoryManager.h deleted file mode 100644 index e88031346f82..000000000000 --- a/biology/adun/files/patch-AdunMemoryManager.h +++ /dev/null @@ -1,22 +0,0 @@ ---- Kernel/AdunKernel/Headers/AdunKernel/AdunMemoryManager.h.orig Tue Jun 13 12:16:44 2006 -+++ Kernel/AdunKernel/Headers/AdunKernel/AdunMemoryManager.h Sun Nov 5 13:16:58 2006 -@@ -24,7 +24,9 @@ - #define _ADUNIOMANAGER_ - - #include <stdlib.h> -+#ifndef __FreeBSD__ - #include <malloc.h> -+#endif - #include "Base/InterTable.h" - #include "AdunKernel/AdunDefinitions.h" - #include "AdunKernel/AdunObject.h" -@@ -38,7 +40,9 @@ - - @interface AdMemoryManager: AdObject - { -+#ifndef __FreeBSD__ - struct mallinfo mem_struct; -+#endif - BOOL MEMORY_STATS; - } - diff --git a/biology/adun/files/patch-AdunMemoryManager.m b/biology/adun/files/patch-AdunMemoryManager.m deleted file mode 100644 index c1d7235482b7..000000000000 --- a/biology/adun/files/patch-AdunMemoryManager.m +++ /dev/null @@ -1,266 +0,0 @@ ---- Kernel/AdunKernel/Framework/AdunMemoryManager.m.orig Tue Jun 13 12:16:44 2006 -+++ Kernel/AdunKernel/Framework/AdunMemoryManager.m Sun Nov 5 13:15:25 2006 -@@ -68,6 +68,7 @@ - NSError* error; - NSMutableDictionary* errorDict; - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -77,6 +78,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - //The return value of malloc(0) is implementation dependant - //It can return NULL in which case it is indistinguisable from -@@ -133,6 +135,7 @@ - - memset(array, 0, size); - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -143,6 +146,7 @@ - mem_struct.fordblks); - fflush(stderr); - } -+#endif - - - return array; -@@ -154,6 +158,7 @@ - double *array; - AdMatrix *matrix; - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -163,6 +168,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - matrix = (AdMatrix*)malloc(sizeof(AdMatrix)); - matrix->no_rows = no_rows; -@@ -172,6 +178,7 @@ - for(i=0, j=0; i < no_rows; i++, j = j + no_columns) - matrix->matrix[i] = array + j; - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -181,6 +188,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - return matrix; - } -@@ -191,6 +199,7 @@ - int *array; - IntMatrix *matrix; - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -200,6 +209,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - matrix = (IntMatrix*)malloc(sizeof(IntMatrix)); - matrix->no_rows = no_rows; -@@ -209,6 +219,7 @@ - for(i=0, j=0; i < no_rows; i++, j = j + no_columns) - matrix->matrix[i] = array + j; - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -220,6 +231,7 @@ - } - - return matrix; -+#endif - } - - - (InterTable*) allocateInterTableWithRows: (int) no_rows withColumns: (int) no_columns -@@ -228,6 +240,7 @@ - double *array; - InterTable *table; - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -237,6 +250,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - table = (InterTable*)malloc(sizeof(InterTable)); - table->no_interactions = no_rows; -@@ -248,6 +262,7 @@ - for(i=0, j=0; i < no_rows; i++, j = j + no_columns) - table->table[i] = array + j; - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -257,12 +272,14 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - return table; - } - - - (void) freeArray: (void*)array - { -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -272,9 +289,11 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - free(array); - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -284,6 +303,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - } - - /** Do not use this method to free matrices not allocated by one of the -@@ -297,6 +317,7 @@ - free(matrix[0]); //frees the number array - free(matrix); //frees the index array - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -306,6 +327,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - } - -@@ -313,6 +335,7 @@ - { - //matrices are allocated as arrays - //with another array of indexes -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -322,6 +345,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - if(matrix->no_rows != 0) - { -@@ -330,6 +354,7 @@ - } - free(matrix); - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -339,10 +364,12 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - } - - - (void) freeIntMatrix: (IntMatrix*) matrix - { -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -352,6 +379,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - if(matrix->no_rows != 0) - { -@@ -360,6 +388,7 @@ - } - free(matrix); - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -369,6 +398,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - } - - - (void) freeInterTable: (InterTable*) matrix -@@ -376,6 +406,7 @@ - //matrices are allocated as arrays - //with another array of indexes - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -385,6 +416,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - - if(matrix->no_interactions != 0) - { -@@ -394,6 +426,7 @@ - - free(matrix); - -+#ifndef __FreeBSD__ - if(MEMORY_STATS==YES) - { - mem_struct = mallinfo(); -@@ -403,6 +436,7 @@ - (float)mem_struct.uordblks/(float)MEM_CON, - mem_struct.fordblks); - } -+#endif - } - - @end diff --git a/biology/adun/files/patch-GNUmakefile b/biology/adun/files/patch-GNUmakefile deleted file mode 100644 index e9ab0c8dc869..000000000000 --- a/biology/adun/files/patch-GNUmakefile +++ /dev/null @@ -1,17 +0,0 @@ ---- GNUmakefile.orig Tue Apr 4 18:23:24 2006 -+++ GNUmakefile Sun Nov 5 13:56:03 2006 -@@ -2,12 +2,12 @@ - include $(GNUSTEP_MAKEFILES)/common.make - - SUBPROJECTS = Kernel/ MolTalk/ UL/ --GNUSTEP_INSTALLATION_DIR=$(HOME)/GNUstep -+#GNUSTEP_INSTALLATION_DIR=$(HOME)/GNUstep - - #Rpm - - PACKAGE_NAME=Adun --PACKAGE_VERSION=0.5 -+PACKAGE_VERSION=0.6 - - -include GNUmakefile.preamble - diff --git a/biology/adun/files/patch-main.m b/biology/adun/files/patch-main.m deleted file mode 100644 index fff8726b3ebb..000000000000 --- a/biology/adun/files/patch-main.m +++ /dev/null @@ -1,23 +0,0 @@ ---- Kernel/main.m.orig Mon Aug 7 12:17:30 2006 -+++ Kernel/main.m Sun Nov 5 13:27:26 2006 -@@ -3,7 +3,9 @@ - #include <stdio.h> - #include <float.h> - #include <fenv.h> -+#ifndef __FreeBSD__ - #include <mcheck.h> -+#endif - #include "AdunKernel/AdunKernel.h" - - /** \mainpage -@@ -250,8 +252,10 @@ - - if([[NSUserDefaults standardUserDefaults] boolForKey: @"TraceMemory"] == YES) - { -+#ifndef __FreeBSD__ - mtrace(); - mcheck(NULL); -+#endif - } - - logFile = [[NSUserDefaults standardUserDefaults] stringForKey: @"LogFile"]; diff --git a/biology/adun/pkg-plist b/biology/adun/pkg-plist index 802fdf626b2e..8afd76cf6267 100644 --- a/biology/adun/pkg-plist +++ b/biology/adun/pkg-plist @@ -1,5 +1,18 @@ -Local/Applications/UL.app/Resources/EnzymixParameters.ffml -Local/Applications/UL.app/Resources/EnzymixTopology.ffml +Local/Applications/UL.app/Resources/Converter.gorm/classes.nib +Local/Applications/UL.app/Resources/Converter.gorm/data.classes +Local/Applications/UL.app/Resources/Converter.gorm/data.info +Local/Applications/UL.app/Resources/Converter.gorm/info.nib +Local/Applications/UL.app/Resources/Converter.gorm/keyedobjects.nib +Local/Applications/UL.app/Resources/Converter.gorm/objects.gorm +Local/Applications/UL.app/Resources/DatabasePanel.gorm/classes.nib +Local/Applications/UL.app/Resources/DatabasePanel.gorm/data.classes +Local/Applications/UL.app/Resources/DatabasePanel.gorm/data.info +Local/Applications/UL.app/Resources/DatabasePanel.gorm/info.nib +Local/Applications/UL.app/Resources/DatabasePanel.gorm/keyedobjects.nib +Local/Applications/UL.app/Resources/DatabasePanel.gorm/objects.gorm +Local/Applications/UL.app/Resources/ExportPanel.gorm/data.classes +Local/Applications/UL.app/Resources/ExportPanel.gorm/data.info +Local/Applications/UL.app/Resources/ExportPanel.gorm/objects.gorm Local/Applications/UL.app/Resources/H2O.pdb Local/Applications/UL.app/Resources/Info-gnustep.plist Local/Applications/UL.app/Resources/Options.gorm/data.classes @@ -8,8 +21,11 @@ Local/Applications/UL.app/Resources/Options.gorm/objects.gorm Local/Applications/UL.app/Resources/Preferences.gorm/data.classes Local/Applications/UL.app/Resources/Preferences.gorm/data.info Local/Applications/UL.app/Resources/Preferences.gorm/objects.gorm +Local/Applications/UL.app/Resources/ProgressPanel.gorm/classes.nib Local/Applications/UL.app/Resources/ProgressPanel.gorm/data.classes Local/Applications/UL.app/Resources/ProgressPanel.gorm/data.info +Local/Applications/UL.app/Resources/ProgressPanel.gorm/info.nib +Local/Applications/UL.app/Resources/ProgressPanel.gorm/keyedobjects.nib Local/Applications/UL.app/Resources/ProgressPanel.gorm/objects.gorm Local/Applications/UL.app/Resources/Results.gorm/data.classes Local/Applications/UL.app/Resources/Results.gorm/data.info @@ -25,12 +41,10 @@ Local/Applications/UL.app/Resources/UL.gorm/data.classes Local/Applications/UL.app/Resources/UL.gorm/data.info Local/Applications/UL.app/Resources/UL.gorm/objects.gorm Local/Applications/UL.app/Resources/apply.png +Local/Applications/UL.app/Resources/dataset-close.png Local/Applications/UL.app/Resources/defaultOptions.plist Local/Applications/UL.app/Resources/document-save.png -Local/Applications/UL.app/Resources/pdbBuilderOptions.plist -Local/Applications/UL.app/Resources/pdbNameMap.plist Local/Applications/UL.app/Resources/reload.png -Local/Applications/UL.app/Resources/resultsOptions.plist Local/Applications/UL.app/Resources/splash.tiff Local/Applications/UL.app/UL Local/Applications/UL.app/stamp.make @@ -40,22 +54,24 @@ Local/Library/Frameworks/AdunKernel.framework/Resources Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/AdunKernel Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdCommandInterface.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdController.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdCoreAdditions.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdCoreCommand.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdCreation.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdDataSources.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdDelegation.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdEndSimulationCommand.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdFlushEnergiesCommand.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdForceFieldTerm.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdFrameworkFunctions.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdGridDelegate.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdKeyValueObserving.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdListMemoryManagement.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdReloadCommand.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdIndexSetConversions.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdMatrixModification.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdMemento.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdServerInterface.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdStatusCommand.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdUpdating.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunBondedTopology.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunBoundaryImplementor.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunAmberForceField.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunBerendsenThermostat.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunCellListHandler.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunCharmmForceField.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunConfigurationGenerator.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunContainerDataSource.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunController.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunCore.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunDataMatrix.h @@ -63,101 +79,138 @@ Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Head Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunDataSource.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunDefinitions.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunDynamics.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunEnvironment.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunEllipsoidBox.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunEnzymixForceField.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunFileSystemSimulationStorage.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunForceField.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunForceFieldManager.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunForceFieldTerm.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunForceFieldCollection.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunGRFNonbondedTerm.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunGrid.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunIOManager.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunInteractionSystem.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunKernel.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunLangevinThermostat.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunLinkedList.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunListHandler.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunMemoryManager.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunMinimiser.h Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunModelObject.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunNonBondedListHandler.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunNonBondedTopology.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunNonbondedCalculator.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunObject.h -Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunRelationship.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunMolecularMechanicsForceField.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunMoleculeCavity.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunMultithreadedNonbondedTerm.h +Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers/AdunNonbondedTerm.h 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+Local/Library/Libraries/libMolTalk.so.%%LIBVERSION3%% Local/Tools/AdunCore Local/Tools/AdunServer +Local/Tools/InstallPlugin.py Local/Tools/UL -@dirrm Local/Library/Tools/Resources/AdunCore +@dirrmtry Local/Library/Tools/Resources/AdunCore @dirrmtry Local/Library/Tools/Resources @dirrmtry Local/Library/Tools @dirrm Local/Library/Headers/XMLLib -@dirrm Local/Library/Headers/ULFramework -@dirrm Local/Library/Headers/MolTalk -@dirrm Local/Library/Headers/Framework/Protocols -@dirrm Local/Library/Headers/Framework +@dirrmtry Local/Library/Headers/Framework/Protocols +@dirrmtry Local/Library/Headers/Framework @dirrm Local/Library/Headers/Base +@dirrm Local/Library/Frameworks/ULFramework.framework/Versions/%%MAJORLIBVERSION4%%/Resources/ForceFields/Enzymix +@dirrm Local/Library/Frameworks/ULFramework.framework/Versions/%%MAJORLIBVERSION4%%/Resources/ForceFields/Charmm27 +@dirrm Local/Library/Frameworks/ULFramework.framework/Versions/%%MAJORLIBVERSION4%%/Resources/ForceFields/Amber +@dirrm Local/Library/Frameworks/ULFramework.framework/Versions/%%MAJORLIBVERSION4%%/Resources/ForceFields +@dirrm Local/Library/Frameworks/ULFramework.framework/Versions/%%MAJORLIBVERSION4%%/Resources +@dirrm Local/Library/Frameworks/ULFramework.framework/Versions/%%MAJORLIBVERSION4%%/Headers +@dirrm Local/Library/Frameworks/ULFramework.framework/Versions/%%MAJORLIBVERSION4%% +@dirrm Local/Library/Frameworks/ULFramework.framework/Versions +@dirrm Local/Library/Frameworks/ULFramework.framework +@dirrm Local/Library/Frameworks/MolTalk.framework/Versions/%%MAJORLIBVERSION3%%/Resources +@dirrm Local/Library/Frameworks/MolTalk.framework/Versions/%%MAJORLIBVERSION3%%/Headers +@dirrm Local/Library/Frameworks/MolTalk.framework/Versions/%%MAJORLIBVERSION3%% +@dirrm Local/Library/Frameworks/MolTalk.framework/Versions +@dirrm Local/Library/Frameworks/MolTalk.framework @dirrm Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Resources @dirrm Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%%/Headers @dirrm Local/Library/Frameworks/AdunKernel.framework/Versions/%%MAJORLIBVERSION2%% @@ -212,5 +277,8 @@ Local/Tools/UL @dirrm Local/Applications/UL.app/Resources/ProgressPanel.gorm @dirrm Local/Applications/UL.app/Resources/Preferences.gorm @dirrm Local/Applications/UL.app/Resources/Options.gorm +@dirrm Local/Applications/UL.app/Resources/ExportPanel.gorm +@dirrm Local/Applications/UL.app/Resources/DatabasePanel.gorm +@dirrm Local/Applications/UL.app/Resources/Converter.gorm @dirrm Local/Applications/UL.app/Resources @dirrm Local/Applications/UL.app |