I just upgraded to Leopard, and it went smoothly. I also upgraded all  
william kyngesbury's installers and upgraded R

But when I went to use Rgdal (in R), I couldn't, and naturally, I  
thought it might have been to do with changes in the gdal libraries.  
It looked like this

 > library(rgdal)
Loading required package: sp
Error in dyn.load(file, ...) :
  unable to load shared library '/Library/Frameworks/R.framework/ 
Resources/library/rgdal/libs/i386/rgdal.so':
  dlopen(/Library/Frameworks/R.framework/Resources/library/rgdal/libs/ 
i386/rgdal.so, 6): Library not loaded: /Library/Frameworks/R.framework/ 
Versions/2.5/Resources/lib/libR.dylib
  Referenced from: /Library/Frameworks/R.framework/Resources/library/ 
rgdal/libs/i386/rgdal.so
  Reason: no suitable image found.  Did find:
	/usr/local/lib/libR.dylib: stat() failed with errno=62
Error: package/namespace load failed for 'rgdal'
 >

I then tried to upgrade, but lost the lot! I have attached the crash  
log for R (when I tried to upgrade rgdal)

Any ideas?

cheers

Ben





Process:         R [1116]
Path:            /Applications/R.app/Contents/MacOS/R
Identifier:      org.R-project.R
Version:         R GUI 1.24-devel (4944)
Code Type:       X86 (Native)
Parent Process:  launchd [115]

Date/Time:       2008-02-20 14:05:42.721 +0900
OS Version:      Mac OS X 10.5.2 (9C31)
Report Version:  6

Exception Type:  EXC_BREAKPOINT (SIGTRAP)
Exception Codes: 0x0000000000000002, 0x0000000000000000
Crashed Thread:  2

Application Specific Information:
*** Terminating app due to uncaught exception  
'NSPortTimeoutException', reason: 'connection timeout: did not receive  
reply'

Thread 0:
0   libSystem.B.dylib             	0x9211292f szone_malloc + 182
1   libSystem.B.dylib             	0x92112838 malloc_zone_malloc + 81
2   libSystem.B.dylib             	0x921127cc malloc + 55
3   libR.dylib                    	0x0041cfe4 build_trtable + 2737
4   libR.dylib                    	0x0041edbe re_search_internal + 5107
5   libR.dylib                    	0x0041eeb0 Rf_regexec + 94
6   libR.dylib                    	0x003275c7 do_regexpr + 2086
7   libR.dylib                    	0x003ba55c do_internal + 336
8   libR.dylib                    	0x0038518e Rf_eval + 1182
9   libR.dylib                    	0x003874a4 Rf_applyClosure + 663
10  libR.dylib                    	0x00385085 Rf_eval + 917
11  libR.dylib                    	0x003857ef Rf_evalList + 125
12  libR.dylib                    	0x00385262 Rf_eval + 1394
13  libR.dylib                    	0x003857ef Rf_evalList + 125
14  libR.dylib                    	0x00385262 Rf_eval + 1394
15  libR.dylib                    	0x00389576 do_set + 592
16  libR.dylib                    	0x0038518e Rf_eval + 1182
17  libR.dylib                    	0x00385f3f do_begin + 58
18  libR.dylib                    	0x0038518e Rf_eval + 1182
19  libR.dylib                    	0x0038518e Rf_eval + 1182
20  libR.dylib                    	0x00385f3f do_begin + 58
21  libR.dylib                    	0x0038518e Rf_eval + 1182
22  libR.dylib                    	0x003874a4 Rf_applyClosure + 663
23  libR.dylib                    	0x00385085 Rf_eval + 917
24  libR.dylib                    	0x00385f3f do_begin + 58
25  libR.dylib                    	0x0038518e Rf_eval + 1182
26  libR.dylib                    	0x003874a4 Rf_applyClosure + 663
27  libR.dylib                    	0x00385085 Rf_eval + 917
28  libR.dylib                    	0x003857ef Rf_evalList + 125
29  libR.dylib                    	0x00385262 Rf_eval + 1394
30  libR.dylib                    	0x00385f3f do_begin + 58
31  libR.dylib                    	0x0038518e Rf_eval + 1182
32  libR.dylib                    	0x0038518e Rf_eval + 1182
33  libR.dylib                    	0x00385f3f do_begin + 58
34  libR.dylib                    	0x0038518e Rf_eval + 1182
35  libR.dylib                    	0x003874a4 Rf_applyClosure + 663
36  libR.dylib                    	0x00385085 Rf_eval + 917
37  libR.dylib                    	0x002fd377 do_lapply + 506
38  libR.dylib                    	0x003ba55c do_internal + 336
39  libR.dylib                    	0x0038518e Rf_eval + 1182
40  libR.dylib                    	0x00385f3f do_begin + 58
41  libR.dylib                    	0x0038518e Rf_eval + 1182
42  libR.dylib                    	0x003874a4 Rf_applyClosure + 663
43  libR.dylib                    	0x00385085 Rf_eval + 917
44  libR.dylib                    	0x00385f3f do_begin + 58
45  libR.dylib                    	0x0038518e Rf_eval + 1182
46  libR.dylib                    	0x003874a4 Rf_applyClosure + 663
47  libR.dylib                    	0x00385085 Rf_eval + 917
48  libR.dylib                    	0x00389576 do_set + 592
49  libR.dylib                    	0x0038518e Rf_eval + 1182
50  libR.dylib                    	0x00385f3f do_begin + 58
51  libR.dylib                    	0x0038518e Rf_eval + 1182
52  libR.dylib                    	0x003874a4 Rf_applyClosure + 663
53  libR.dylib                    	0x00385085 Rf_eval + 917
54  libR.dylib                    	0x00389576 do_set + 592
55  libR.dylib                    	0x0038518e Rf_eval + 1182
56  libR.dylib                    	0x00385f3f do_begin + 58
57  libR.dylib                    	0x0038518e Rf_eval + 1182
58  libR.dylib                    	0x00388deb do_for + 585
59  libR.dylib                    	0x0038518e Rf_eval + 1182
60  libR.dylib                    	0x00385f3f do_begin + 58
61  libR.dylib                    	0x0038518e Rf_eval + 1182
62  libR.dylib                    	0x0038518e Rf_eval + 1182
63  libR.dylib                    	0x00385f3f do_begin + 58
64  libR.dylib                    	0x0038518e Rf_eval + 1182
65  libR.dylib                    	0x003874a4 Rf_applyClosure + 663
66  libR.dylib                    	0x00385085 Rf_eval + 917
67  libR.dylib                    	0x00385499 Rf_evalListKeepMissing +  
127
68  libR.dylib                    	0x00385a16 evalArgs + 42
69  libR.dylib                    	0x00385d1f Rf_DispatchOrEval + 775
70  libR.dylib                    	0x00452821 do_subset + 79
71  libR.dylib                    	0x0038518e Rf_eval + 1182
72  libR.dylib                    	0x00389576 do_set + 592
73  libR.dylib                    	0x0038518e Rf_eval + 1182
74  libR.dylib                    	0x00385f3f do_begin + 58
75  libR.dylib                    	0x0038518e Rf_eval + 1182
76  libR.dylib                    	0x0038518e Rf_eval + 1182
77  libR.dylib                    	0x00385f3f do_begin + 58
78  libR.dylib                    	0x0038518e Rf_eval + 1182
79  libR.dylib                    	0x003874a4 Rf_applyClosure + 663
80  libR.dylib                    	0x00385085 Rf_eval + 917
81  libR.dylib                    	0x00389576 do_set + 592
82  libR.dylib                    	0x0038518e Rf_eval + 1182
83  libR.dylib                    	0x00385f3f do_begin + 58
84  libR.dylib                    	0x0038518e Rf_eval + 1182
85  libR.dylib                    	0x003874a4 Rf_applyClosure + 663
86  libR.dylib                    	0x00385085 Rf_eval + 917
87  libR.dylib                    	0x0034657a protectedEval + 44
88  libR.dylib                    	0x00346beb R_ToplevelExec + 234
89  libR.dylib                    	0x00346c2a R_tryEval + 56
90  org.R-project.R               	0x0000fbfc -[REngine  
evaluateExpressions:] + 296 (REngine.m:281)
91  org.R-project.R               	0x0000ff6a -[REngine  
executeString:] + 204 (REngine.m:333)
92  org.R-project.R               	0x00014a05 -[PackageInstaller  
reloadURL:] + 543 (PackageInstaller.m:340)
93  com.apple.AppKit              	0x9474ce56 -[NSApplication  
sendAction:to:from:] + 112
94  com.apple.AppKit              	0x9474cd94 -[NSControl  
sendAction:to:] + 108
95  com.apple.AppKit              	0x9474cc1a -[NSCell  
_sendActionFrom:] + 169
96  com.apple.AppKit              	0x9474c273 -[NSCell  
trackMouse:inRect:ofView:untilMouseUp:] + 1827
97  com.apple.AppKit              	0x9474bac6 -[NSButtonCell  
trackMouse:inRect:ofView:untilMouseUp:] + 541
98  com.apple.AppKit              	0x9474b380 -[NSControl mouseDown:]  
+ 888
99  com.apple.AppKit              	0x94749ac3 -[NSWindow sendEvent:] +  
5381
100 com.apple.AppKit              	0x94716714 -[NSApplication  
sendEvent:] + 2780
101 org.R-project.R               	0x00007d7d -[RController  
doProcessEvents:] + 204 (RController.m:2038)
102 org.R-project.R               	0x0000539a -[RController  
handleReadConsole:] + 83 (RController.m:959)
103 org.R-project.R               	0x0000f35d Re_ReadConsole + 494  
(Rcallbacks.m:137)
104 org.R-project.R               	0x00016cd6 run_REngineRmainloop +  
462 (Rinit.c:381)
105 org.R-project.R               	0x0000f73c -[REngine runREPL] + 98  
(REngine.m:178)
106 org.R-project.R               	0x000020e0 main + 738 (main.m:125)
107 org.R-project.R               	0x00001de2 _start + 216
108 org.R-project.R               	0x00001d09 start + 41

Thread 1:
0   libSystem.B.dylib             	0x921119e6 mach_msg_trap + 10
1   libSystem.B.dylib             	0x921191dc mach_msg + 72
2   com.apple.CoreFoundation      	0x940d20de CFRunLoopRunSpecific +  
1806
3   com.apple.CoreFoundation      	0x940d2d18 CFRunLoopRunInMode + 88
4   com.apple.CFNetwork           	0x964626cc  
CFURLCacheWorkerThread(void*) + 396
5   libSystem.B.dylib             	0x92142c55 _pthread_start + 321
6   libSystem.B.dylib             	0x92142b12 thread_start + 34

Thread 2 Crashed:
0   com.apple.CoreFoundation      	0x9414c0f4  
___TERMINATING_DUE_TO_UNCAUGHT_EXCEPTION___ + 4
1   libobjc.A.dylib               	0x91ca30fb objc_exception_throw + 40
2   com.apple.Foundation          	0x92e391a6 -[NSConnection  
sendInvocation:internal:] + 2422
3   com.apple.Foundation          	0x92e380d6 -[NSDistantObject  
methodSignatureForSelector:] + 1302
4   com.apple.CoreFoundation      	0x941517bd ___forwarding___ + 237
5   com.apple.CoreFoundation      	0x94151b12 _CF_forwarding_prep_0 + 50
6   org.R-project.R               	0x0000415a -[RController  
readThread:] + 822 (RController.m:645)
7   com.apple.Foundation          	0x92e025ad -[NSThread main] + 45
8   com.apple.Foundation          	0x92e02154 __NSThread__main__ + 308
9   libSystem.B.dylib             	0x92142c55 _pthread_start + 321
10  libSystem.B.dylib             	0x92142b12 thread_start + 34

Thread 3:
0   libSystem.B.dylib             	0x92118bce __semwait_signal + 10
1   libSystem.B.dylib             	0x92118996 usleep$UNIX2003 + 61
2   com.apple.AppKit              	0x946e1cf9 -[NSUIHeartBeat  
_heartBeatThread:] + 2042
3   com.apple.Foundation          	0x92e025ad -[NSThread main] + 45
4   com.apple.Foundation          	0x92e02154 __NSThread__main__ + 308
5   libSystem.B.dylib             	0x92142c55 _pthread_start + 321
6   libSystem.B.dylib             	0x92142b12 thread_start + 34

Thread 4:
0   libSystem.B.dylib             	0x92118bce __semwait_signal + 10
1   libSystem.B.dylib             	0x921438cd pthread_cond_wait 
$UNIX2003 + 73
2   com.apple.QuartzCore          	0x91e6f121 fe_fragment_thread + 54
3   libSystem.B.dylib             	0x92142c55 _pthread_start + 321
4   libSystem.B.dylib             	0x92142b12 thread_start + 34

Thread 5:
0   libSystem.B.dylib             	0x921119e6 mach_msg_trap + 10
1   libSystem.B.dylib             	0x921191dc mach_msg + 72
2   com.apple.CoreFoundation      	0x940d20de CFRunLoopRunSpecific +  
1806
3   com.apple.CoreFoundation      	0x940d2d18 CFRunLoopRunInMode + 88
4   com.apple.Foundation          	0x92e65ac0 + 
[NSURLConnection(NSURLConnectionReallyInternal) _resourceLoadLoop:] +  
320
5   com.apple.Foundation          	0x92e025ad -[NSThread main] + 45
6   com.apple.Foundation          	0x92e02154 __NSThread__main__ + 308
7   libSystem.B.dylib             	0x92142c55 _pthread_start + 321
8   libSystem.B.dylib             	0x92142b12 thread_start + 34

Thread 2 crashed with X86 Thread State (32-bit):
  eax: 0xa064d0f0  ebx: 0x91ca30dc  ecx: 0xa064c1a0  edx: 0x007e9000
  edi: 0x00000000  esi: 0xb01466d0  ebp: 0xb0146618  esp: 0xb0146618
   ss: 0x0000001f  efl: 0x00000286  eip: 0x9414c0f4   cs: 0x00000017
   ds: 0x0000001f   es: 0x0000001f   fs: 0x0000001f   gs: 0x00000037
  cr2: 0x2ec24000

Binary Images:
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Library/Frameworks/ExceptionHandling.framework/Versions/A/ 
ExceptionHandling
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  0x1b4000 -   0x1bbfed +libgcc_s.1.dylib ??? (???) /Library/ 
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<f53c808e87d1184c0f9df63aef53ce0b> /usr/lib/libgcc_s.1.dylib
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(1.5.1) /System/Library/Frameworks/AudioToolbox.framework/Versions/A/ 
AudioToolbox
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system/libmathCommon.A.dylib
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Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/ 
Versions/A/libBLAS.dylib
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Library/Frameworks/Carbon.framework/Versions/A/Frameworks/ 
ImageCapture.framework/Versions/A/ImageCapture
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IOKit.framework/Versions/A/IOKit
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WebKit.framework/Versions/A/Frameworks/WebCore.framework/Versions/A/ 
WebCore
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CoreServices.framework/Versions/A/Frameworks/CarbonCore.framework/ 
Versions/A/CarbonCore
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CoreAudio.framework/Versions/A/CoreAudio
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ApplicationServices.framework/Versions/A/Frameworks/ 
CoreGraphics.framework/Versions/A/Resources/libCSync.A.dylib
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ApplicationServices.framework/Versions/A/Frameworks/CoreText.framework/ 
Versions/A/CoreText
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ApplicationServices.framework/Versions/A/Frameworks/ImageIO.framework/ 
Versions/A/Resources/libTIFF.dylib
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Carbon.framework/Versions/A/Frameworks/CommonPanels.framework/Versions/ 
A/CommonPanels
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Frameworks/OpenGL.framework/Versions/A/Libraries/libGLU.dylib
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ApplicationServices.framework/Versions/A/Frameworks/ATS.framework/ 
Versions/A/ATS
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CoreVideo.framework/Versions/A/CoreVideo
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Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/ 
libvDSP.dylib
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Cocoa.framework/Versions/A/Cocoa
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SecurityHI
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OpenGL.framework/Versions/A/Libraries/libGLImage.dylib
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ApplicationServices.framework/Versions/A/Frameworks/ 
CoreGraphics.framework/Versions/A/Resources/libRIP.A.dylib
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HIToolbox
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ApplicationServices.framework/Versions/A/Frameworks/ 
HIServices.framework/Versions/A/HIServices
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ApplicationServices.framework/Versions/A/Frameworks/ 
CoreGraphics.framework/Versions/A/CoreGraphics
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Versions/A/Resources/libGIF.dylib
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Kerberos.framework/Versions/A/Kerberos
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ApplicationServices.framework/Versions/A/Frameworks/ 
CoreGraphics.framework/Versions/A/Resources/libCGATS.A.dylib
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OpenGL.framework/Versions/A/Libraries/libGLProgrammability.dylib
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Carbon.framework/Versions/A/Frameworks/OpenScripting.framework/ 
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Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/ 
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libobjc.A.dylib
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libSystem.B.dylib


-- 

Ben Madin
REMOTE INFORMATION

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Broome   WA   6725

ben@remoteinformation.com.au



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