This repository is a base of Eos.
Revision | af3a7360ff82a4644aeae59fdba69879806134c2 (tree) |
---|---|
Time | 2014-10-01 20:09:10 |
Author | Takuo Yasunaga <yasunaga@bio....> |
Commiter | Takuo Yasunaga |
Create a new tool of mrcImageAutoRotationAverage:
new file: mrcImageAutoRotationAverage
modified: src/Objects/DataManip/mrcImage/src/lmrcImageCorrelation.h
Input/Output separation of struct
@@ -0,0 +1 @@ | ||
1 | +../sbin/MachineIndependent | |
\ No newline at end of file |
@@ -0,0 +1,209 @@ | ||
1 | +argCheck.o: argCheck.c /usr/include/stdio.h /usr/include/sys/cdefs.h \ | |
2 | + /usr/include/sys/_symbol_aliasing.h \ | |
3 | + /usr/include/sys/_posix_availability.h /usr/include/Availability.h \ | |
4 | + /usr/include/AvailabilityInternal.h /usr/include/_types.h \ | |
5 | + /usr/include/sys/_types.h /usr/include/machine/_types.h \ | |
6 | + /usr/include/i386/_types.h /usr/include/sys/_types/_va_list.h \ | |
7 | + /usr/include/sys/_types/_size_t.h /usr/include/sys/_types/_null.h \ | |
8 | + /usr/include/sys/_types/_off_t.h /usr/include/sys/_types/_ssize_t.h \ | |
9 | + /usr/include/secure/_stdio.h /usr/include/secure/_common.h \ | |
10 | + /usr/include/stdlib.h /usr/include/sys/wait.h \ | |
11 | + /usr/include/sys/_types/_pid_t.h /usr/include/sys/_types/_id_t.h \ | |
12 | + /usr/include/sys/signal.h /usr/include/sys/appleapiopts.h \ | |
13 | + /usr/include/machine/signal.h /usr/include/i386/signal.h \ | |
14 | + /usr/include/machine/_mcontext.h /usr/include/i386/_mcontext.h \ | |
15 | + /usr/include/mach/i386/_structs.h \ | |
16 | + /usr/include/sys/_types/_sigaltstack.h \ | |
17 | + /usr/include/sys/_types/_ucontext.h \ | |
18 | + /usr/include/sys/_types/_pthread_attr_t.h \ | |
19 | + /usr/include/sys/_types/_sigset_t.h /usr/include/sys/_types/_uid_t.h \ | |
20 | + /usr/include/sys/resource.h \ | |
21 | + /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/6.0/include/stdint.h \ | |
22 | + /usr/include/stdint.h /usr/include/sys/_types/_int8_t.h \ | |
23 | + /usr/include/sys/_types/_int16_t.h /usr/include/sys/_types/_int32_t.h \ | |
24 | + /usr/include/sys/_types/_int64_t.h /usr/include/_types/_uint8_t.h \ | |
25 | + /usr/include/_types/_uint16_t.h /usr/include/_types/_uint32_t.h \ | |
26 | + /usr/include/_types/_uint64_t.h /usr/include/sys/_types/_intptr_t.h \ | |
27 | + /usr/include/sys/_types/_uintptr_t.h /usr/include/_types/_intmax_t.h \ | |
28 | + /usr/include/_types/_uintmax_t.h /usr/include/sys/_types/_timeval.h \ | |
29 | + /usr/include/machine/endian.h /usr/include/i386/endian.h \ | |
30 | + /usr/include/sys/_endian.h /usr/include/libkern/_OSByteOrder.h \ | |
31 | + /usr/include/libkern/i386/_OSByteOrder.h /usr/include/alloca.h \ | |
32 | + /usr/include/sys/_types/_ct_rune_t.h /usr/include/sys/_types/_rune_t.h \ | |
33 | + /usr/include/sys/_types/_wchar_t.h /usr/include/machine/types.h \ | |
34 | + /usr/include/i386/types.h /usr/include/sys/_types/___offsetof.h \ | |
35 | + /usr/include/sys/_types/_dev_t.h /usr/include/sys/_types/_mode_t.h \ | |
36 | + /Users/tacyas/Eos/include/string.h /usr/include/math.h ../inc/config.h \ | |
37 | + ../inc/../inc/mrcImageAutoRotationAverage.h \ | |
38 | + /Users/tacyas/Eos/include/genUtil.h /Users/tacyas/Eos/include/File.h \ | |
39 | + /Users/tacyas/Eos/include/Memory.h \ | |
40 | + /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/6.0/include/limits.h \ | |
41 | + /usr/include/limits.h /usr/include/machine/limits.h \ | |
42 | + /usr/include/i386/limits.h /usr/include/i386/_limits.h \ | |
43 | + /usr/include/sys/syslimits.h | |
44 | +init.o: init.c /usr/include/stdio.h /usr/include/sys/cdefs.h \ | |
45 | + /usr/include/sys/_symbol_aliasing.h \ | |
46 | + /usr/include/sys/_posix_availability.h /usr/include/Availability.h \ | |
47 | + /usr/include/AvailabilityInternal.h /usr/include/_types.h \ | |
48 | + /usr/include/sys/_types.h /usr/include/machine/_types.h \ | |
49 | + /usr/include/i386/_types.h /usr/include/sys/_types/_va_list.h \ | |
50 | + /usr/include/sys/_types/_size_t.h /usr/include/sys/_types/_null.h \ | |
51 | + /usr/include/sys/_types/_off_t.h /usr/include/sys/_types/_ssize_t.h \ | |
52 | + /usr/include/secure/_stdio.h /usr/include/secure/_common.h \ | |
53 | + /usr/include/stdlib.h /usr/include/sys/wait.h \ | |
54 | + /usr/include/sys/_types/_pid_t.h /usr/include/sys/_types/_id_t.h \ | |
55 | + /usr/include/sys/signal.h /usr/include/sys/appleapiopts.h \ | |
56 | + /usr/include/machine/signal.h /usr/include/i386/signal.h \ | |
57 | + /usr/include/machine/_mcontext.h /usr/include/i386/_mcontext.h \ | |
58 | + /usr/include/mach/i386/_structs.h \ | |
59 | + /usr/include/sys/_types/_sigaltstack.h \ | |
60 | + /usr/include/sys/_types/_ucontext.h \ | |
61 | + /usr/include/sys/_types/_pthread_attr_t.h \ | |
62 | + /usr/include/sys/_types/_sigset_t.h /usr/include/sys/_types/_uid_t.h \ | |
63 | + /usr/include/sys/resource.h \ | |
64 | + /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/6.0/include/stdint.h \ | |
65 | + /usr/include/stdint.h /usr/include/sys/_types/_int8_t.h \ | |
66 | + /usr/include/sys/_types/_int16_t.h /usr/include/sys/_types/_int32_t.h \ | |
67 | + /usr/include/sys/_types/_int64_t.h /usr/include/_types/_uint8_t.h \ | |
68 | + /usr/include/_types/_uint16_t.h /usr/include/_types/_uint32_t.h \ | |
69 | + /usr/include/_types/_uint64_t.h /usr/include/sys/_types/_intptr_t.h \ | |
70 | + /usr/include/sys/_types/_uintptr_t.h /usr/include/_types/_intmax_t.h \ | |
71 | + /usr/include/_types/_uintmax_t.h /usr/include/sys/_types/_timeval.h \ | |
72 | + /usr/include/machine/endian.h /usr/include/i386/endian.h \ | |
73 | + /usr/include/sys/_endian.h /usr/include/libkern/_OSByteOrder.h \ | |
74 | + /usr/include/libkern/i386/_OSByteOrder.h /usr/include/alloca.h \ | |
75 | + /usr/include/sys/_types/_ct_rune_t.h /usr/include/sys/_types/_rune_t.h \ | |
76 | + /usr/include/sys/_types/_wchar_t.h /usr/include/machine/types.h \ | |
77 | + /usr/include/i386/types.h /usr/include/sys/_types/___offsetof.h \ | |
78 | + /usr/include/sys/_types/_dev_t.h /usr/include/sys/_types/_mode_t.h \ | |
79 | + /Users/tacyas/Eos/include/string.h /usr/include/math.h ../inc/config.h \ | |
80 | + ../inc/../inc/mrcImageAutoRotationAverage.h \ | |
81 | + /Users/tacyas/Eos/include/genUtil.h /Users/tacyas/Eos/include/File.h \ | |
82 | + /Users/tacyas/Eos/include/Memory.h \ | |
83 | + /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/6.0/include/limits.h \ | |
84 | + /usr/include/limits.h /usr/include/machine/limits.h \ | |
85 | + /usr/include/i386/limits.h /usr/include/i386/_limits.h \ | |
86 | + /usr/include/sys/syslimits.h | |
87 | +mrcImageAutoRotationAverage.o: mrcImageAutoRotationAverage.c \ | |
88 | + /usr/include/stdio.h /usr/include/sys/cdefs.h \ | |
89 | + /usr/include/sys/_symbol_aliasing.h \ | |
90 | + /usr/include/sys/_posix_availability.h /usr/include/Availability.h \ | |
91 | + /usr/include/AvailabilityInternal.h /usr/include/_types.h \ | |
92 | + /usr/include/sys/_types.h /usr/include/machine/_types.h \ | |
93 | + /usr/include/i386/_types.h /usr/include/sys/_types/_va_list.h \ | |
94 | + /usr/include/sys/_types/_size_t.h /usr/include/sys/_types/_null.h \ | |
95 | + /usr/include/sys/_types/_off_t.h /usr/include/sys/_types/_ssize_t.h \ | |
96 | + /usr/include/secure/_stdio.h /usr/include/secure/_common.h \ | |
97 | + /usr/include/stdlib.h /usr/include/sys/wait.h \ | |
98 | + /usr/include/sys/_types/_pid_t.h /usr/include/sys/_types/_id_t.h \ | |
99 | + /usr/include/sys/signal.h /usr/include/sys/appleapiopts.h \ | |
100 | + /usr/include/machine/signal.h /usr/include/i386/signal.h \ | |
101 | + /usr/include/machine/_mcontext.h /usr/include/i386/_mcontext.h \ | |
102 | + /usr/include/mach/i386/_structs.h \ | |
103 | + /usr/include/sys/_types/_sigaltstack.h \ | |
104 | + /usr/include/sys/_types/_ucontext.h \ | |
105 | + /usr/include/sys/_types/_pthread_attr_t.h \ | |
106 | + /usr/include/sys/_types/_sigset_t.h /usr/include/sys/_types/_uid_t.h \ | |
107 | + /usr/include/sys/resource.h \ | |
108 | + /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/6.0/include/stdint.h \ | |
109 | + /usr/include/stdint.h /usr/include/sys/_types/_int8_t.h \ | |
110 | + /usr/include/sys/_types/_int16_t.h /usr/include/sys/_types/_int32_t.h \ | |
111 | + /usr/include/sys/_types/_int64_t.h /usr/include/_types/_uint8_t.h \ | |
112 | + /usr/include/_types/_uint16_t.h /usr/include/_types/_uint32_t.h \ | |
113 | + /usr/include/_types/_uint64_t.h /usr/include/sys/_types/_intptr_t.h \ | |
114 | + /usr/include/sys/_types/_uintptr_t.h /usr/include/_types/_intmax_t.h \ | |
115 | + /usr/include/_types/_uintmax_t.h /usr/include/sys/_types/_timeval.h \ | |
116 | + /usr/include/machine/endian.h /usr/include/i386/endian.h \ | |
117 | + /usr/include/sys/_endian.h /usr/include/libkern/_OSByteOrder.h \ | |
118 | + /usr/include/libkern/i386/_OSByteOrder.h /usr/include/alloca.h \ | |
119 | + /usr/include/sys/_types/_ct_rune_t.h /usr/include/sys/_types/_rune_t.h \ | |
120 | + /usr/include/sys/_types/_wchar_t.h /usr/include/machine/types.h \ | |
121 | + /usr/include/i386/types.h /usr/include/sys/_types/___offsetof.h \ | |
122 | + /usr/include/sys/_types/_dev_t.h /usr/include/sys/_types/_mode_t.h \ | |
123 | + /Users/tacyas/Eos/include/string.h /usr/include/math.h ../inc/config.h \ | |
124 | + ../inc/../inc/mrcImageAutoRotationAverage.h \ | |
125 | + /Users/tacyas/Eos/include/genUtil.h \ | |
126 | + /Users/tacyas/Eos/include/mrcImage.h \ | |
127 | + /Users/tacyas/Eos/include/Matrix3D.h \ | |
128 | + /Users/tacyas/Eos/include/Vector.h /Users/tacyas/Eos/include/Array.h \ | |
129 | + /Users/tacyas/Eos/include/ctfInfo.h /Users/tacyas/Eos/include/Memory.h \ | |
130 | + /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/6.0/include/limits.h \ | |
131 | + /usr/include/limits.h /usr/include/machine/limits.h \ | |
132 | + /usr/include/i386/limits.h /usr/include/i386/_limits.h \ | |
133 | + /usr/include/sys/syslimits.h \ | |
134 | + /Users/tacyas/Eos/include/lmrcImageAverage.h \ | |
135 | + /Users/tacyas/Eos/include/lmrcImageCorrelation.h \ | |
136 | + /Users/tacyas/Eos/include/PVM.h \ | |
137 | + /Users/tacyas/Eos/include/lmrcImageSSDA.h | |
138 | +usage.o: usage.c /usr/include/stdio.h /usr/include/sys/cdefs.h \ | |
139 | + /usr/include/sys/_symbol_aliasing.h \ | |
140 | + /usr/include/sys/_posix_availability.h /usr/include/Availability.h \ | |
141 | + /usr/include/AvailabilityInternal.h /usr/include/_types.h \ | |
142 | + /usr/include/sys/_types.h /usr/include/machine/_types.h \ | |
143 | + /usr/include/i386/_types.h /usr/include/sys/_types/_va_list.h \ | |
144 | + /usr/include/sys/_types/_size_t.h /usr/include/sys/_types/_null.h \ | |
145 | + /usr/include/sys/_types/_off_t.h /usr/include/sys/_types/_ssize_t.h \ | |
146 | + /usr/include/secure/_stdio.h /usr/include/secure/_common.h \ | |
147 | + /usr/include/stdlib.h /usr/include/sys/wait.h \ | |
148 | + /usr/include/sys/_types/_pid_t.h /usr/include/sys/_types/_id_t.h \ | |
149 | + /usr/include/sys/signal.h /usr/include/sys/appleapiopts.h \ | |
150 | + /usr/include/machine/signal.h /usr/include/i386/signal.h \ | |
151 | + /usr/include/machine/_mcontext.h /usr/include/i386/_mcontext.h \ | |
152 | + /usr/include/mach/i386/_structs.h \ | |
153 | + /usr/include/sys/_types/_sigaltstack.h \ | |
154 | + /usr/include/sys/_types/_ucontext.h \ | |
155 | + /usr/include/sys/_types/_pthread_attr_t.h \ | |
156 | + /usr/include/sys/_types/_sigset_t.h /usr/include/sys/_types/_uid_t.h \ | |
157 | + /usr/include/sys/resource.h \ | |
158 | + /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/6.0/include/stdint.h \ | |
159 | + /usr/include/stdint.h /usr/include/sys/_types/_int8_t.h \ | |
160 | + /usr/include/sys/_types/_int16_t.h /usr/include/sys/_types/_int32_t.h \ | |
161 | + /usr/include/sys/_types/_int64_t.h /usr/include/_types/_uint8_t.h \ | |
162 | + /usr/include/_types/_uint16_t.h /usr/include/_types/_uint32_t.h \ | |
163 | + /usr/include/_types/_uint64_t.h /usr/include/sys/_types/_intptr_t.h \ | |
164 | + /usr/include/sys/_types/_uintptr_t.h /usr/include/_types/_intmax_t.h \ | |
165 | + /usr/include/_types/_uintmax_t.h /usr/include/sys/_types/_timeval.h \ | |
166 | + /usr/include/machine/endian.h /usr/include/i386/endian.h \ | |
167 | + /usr/include/sys/_endian.h /usr/include/libkern/_OSByteOrder.h \ | |
168 | + /usr/include/libkern/i386/_OSByteOrder.h /usr/include/alloca.h \ | |
169 | + /usr/include/sys/_types/_ct_rune_t.h /usr/include/sys/_types/_rune_t.h \ | |
170 | + /usr/include/sys/_types/_wchar_t.h /usr/include/machine/types.h \ | |
171 | + /usr/include/i386/types.h /usr/include/sys/_types/___offsetof.h \ | |
172 | + /usr/include/sys/_types/_dev_t.h /usr/include/sys/_types/_mode_t.h \ | |
173 | + ../inc/config.h ../inc/../inc/mrcImageAutoRotationAverage.h | |
174 | +util.o: util.c /usr/include/stdio.h /usr/include/sys/cdefs.h \ | |
175 | + /usr/include/sys/_symbol_aliasing.h \ | |
176 | + /usr/include/sys/_posix_availability.h /usr/include/Availability.h \ | |
177 | + /usr/include/AvailabilityInternal.h /usr/include/_types.h \ | |
178 | + /usr/include/sys/_types.h /usr/include/machine/_types.h \ | |
179 | + /usr/include/i386/_types.h /usr/include/sys/_types/_va_list.h \ | |
180 | + /usr/include/sys/_types/_size_t.h /usr/include/sys/_types/_null.h \ | |
181 | + /usr/include/sys/_types/_off_t.h /usr/include/sys/_types/_ssize_t.h \ | |
182 | + /usr/include/secure/_stdio.h /usr/include/secure/_common.h \ | |
183 | + /usr/include/stdlib.h /usr/include/sys/wait.h \ | |
184 | + /usr/include/sys/_types/_pid_t.h /usr/include/sys/_types/_id_t.h \ | |
185 | + /usr/include/sys/signal.h /usr/include/sys/appleapiopts.h \ | |
186 | + /usr/include/machine/signal.h /usr/include/i386/signal.h \ | |
187 | + /usr/include/machine/_mcontext.h /usr/include/i386/_mcontext.h \ | |
188 | + /usr/include/mach/i386/_structs.h \ | |
189 | + /usr/include/sys/_types/_sigaltstack.h \ | |
190 | + /usr/include/sys/_types/_ucontext.h \ | |
191 | + /usr/include/sys/_types/_pthread_attr_t.h \ | |
192 | + /usr/include/sys/_types/_sigset_t.h /usr/include/sys/_types/_uid_t.h \ | |
193 | + /usr/include/sys/resource.h \ | |
194 | + /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/6.0/include/stdint.h \ | |
195 | + /usr/include/stdint.h /usr/include/sys/_types/_int8_t.h \ | |
196 | + /usr/include/sys/_types/_int16_t.h /usr/include/sys/_types/_int32_t.h \ | |
197 | + /usr/include/sys/_types/_int64_t.h /usr/include/_types/_uint8_t.h \ | |
198 | + /usr/include/_types/_uint16_t.h /usr/include/_types/_uint32_t.h \ | |
199 | + /usr/include/_types/_uint64_t.h /usr/include/sys/_types/_intptr_t.h \ | |
200 | + /usr/include/sys/_types/_uintptr_t.h /usr/include/_types/_intmax_t.h \ | |
201 | + /usr/include/_types/_uintmax_t.h /usr/include/sys/_types/_timeval.h \ | |
202 | + /usr/include/machine/endian.h /usr/include/i386/endian.h \ | |
203 | + /usr/include/sys/_endian.h /usr/include/libkern/_OSByteOrder.h \ | |
204 | + /usr/include/libkern/i386/_OSByteOrder.h /usr/include/alloca.h \ | |
205 | + /usr/include/sys/_types/_ct_rune_t.h /usr/include/sys/_types/_rune_t.h \ | |
206 | + /usr/include/sys/_types/_wchar_t.h /usr/include/machine/types.h \ | |
207 | + /usr/include/i386/types.h /usr/include/sys/_types/___offsetof.h \ | |
208 | + /usr/include/sys/_types/_dev_t.h /usr/include/sys/_types/_mode_t.h \ | |
209 | + ../inc/config.h ../inc/../inc/mrcImageAutoRotationAverage.h |
@@ -0,0 +1,114 @@ | ||
1 | +include $(EOS_HOME)/src/$(WORLDNAME)/$(CLASSNAME)/$(OBJECTNAME)/Config/Define.inc | |
2 | +include $(EOS_HOME)/src/$(WORLDNAME)/$(CLASSNAME)/Config/Define.inc | |
3 | +include $(EOS_HOME)/src/$(WORLDNAME)/Config/Define.inc | |
4 | +include $(EOS_HOME)/src/Config/DefineTool.inc | |
5 | + | |
6 | +LIBFILES = \ | |
7 | + $(LIBPREFIX)EosObjects$(LIBSUFFIX) | |
8 | + | |
9 | +LIBFILESDEBUG = \ | |
10 | + $(LIBPREFIX)EosObjects.debug$(LIBSUFFIX) | |
11 | + | |
12 | +SRCC = \ | |
13 | + $(OBJECTNAME).c \ | |
14 | + init.c \ | |
15 | + argCheck.c \ | |
16 | + usage.c \ | |
17 | + util.c | |
18 | + | |
19 | +SRCCXX = \ | |
20 | + $(OBJECTNAME).cc \ | |
21 | + init.cc \ | |
22 | + argCheck.cc \ | |
23 | + usage.cc \ | |
24 | + util.cc | |
25 | + | |
26 | +MODULES = \ | |
27 | + $(OBJECTNAME).o \ | |
28 | + init.o \ | |
29 | + argCheck.o \ | |
30 | + usage.o \ | |
31 | + util.o | |
32 | + | |
33 | +REALMODULES = \ | |
34 | + $(OSTYPE)/$(OBJECTNAME).o \ | |
35 | + $(OSTYPE)/init.o \ | |
36 | + $(OSTYPE)/argCheck.o \ | |
37 | + $(OSTYPE)/usage.o \ | |
38 | + $(OSTYPE)/util.o | |
39 | + | |
40 | +MODULESDEBUG = \ | |
41 | + $(OBJECTNAME).debugo \ | |
42 | + init.debugo \ | |
43 | + argCheck.debugo \ | |
44 | + usage.debugo \ | |
45 | + util.debugo | |
46 | + | |
47 | +MODULESCUDAGDB = \ | |
48 | + $(OBJECTNAME).cudagdb.o \ | |
49 | + init.cudagdb.o \ | |
50 | + argCheck.cudagdb.o \ | |
51 | + usage.cudagdb.o \ | |
52 | + util.cudagdb.o | |
53 | + | |
54 | +REALMODULESDEBUG = \ | |
55 | + $(OSTYPE)/$(OBJECTNAME).debugo \ | |
56 | + $(OSTYPE)/init.debugo \ | |
57 | + $(OSTYPE)/argCheck.debugo \ | |
58 | + $(OSTYPE)/usage.debugo \ | |
59 | + $(OSTYPE)/util.debugo | |
60 | + | |
61 | + | |
62 | +$(OBJECTNAME): $(MODULES) $(LIBFILES) | |
63 | + @if [ -f $(VPATH)/$(OBJECTNAME).c ] ; \ | |
64 | + then \ | |
65 | + echo $(CC) $(CCOPTS) $(MODULES) $(LIBFILES) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
66 | + $(CC) $(CCOPTS) $(MODULES) $(LIBFILES) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
67 | + fi | |
68 | + @if [ -f $(VPATH)/$(OBJECTNAME).cc ] ; \ | |
69 | + then \ | |
70 | + echo $(CXX) $(CCOPTS) $(MODULES) $(LIBFILES) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
71 | + $(CXX) $(CCOPTS) $(MODULES) $(LIBFILES) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
72 | + fi | |
73 | + @if [ -f $(VPATH)/$(OBJECTNAME).ccm ] ; \ | |
74 | + then \ | |
75 | + echo "MICO"; \ | |
76 | + echo $(MICOLD) $(CCOPTS) $(MODULES) $(LIBFILES) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
77 | + $(MICOLD) $(CCOPTS) $(MODULES) $(LIBFILES) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
78 | + fi | |
79 | + @if [ -f $(VPATH)/$(OBJECTNAME).cu ] ; \ | |
80 | + then \ | |
81 | + echo $(NVCC) $(NVCCOPTS) $(MODULES) $(LIBFILES) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) $(CUDALIB) $(CUDAINC) -o $@ ; \ | |
82 | + $(NVCC) $(NVCCOPTS) $(MODULES) $(LIBFILES) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) $(CUDALIB) $(CUDAINC) -o $@ ; \ | |
83 | + fi | |
84 | + | |
85 | + | |
86 | +$(OBJECTNAME).debug: $(MODULESDEBUG) $(LIBFILESDEBUG) | |
87 | + @if [ -f $(VPATH)/$(OBJECTNAME).c ] ; \ | |
88 | + then \ | |
89 | + echo $(CC) $(CCOPTSDEBUG) $(MODULESDEBUG) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
90 | + $(CC) $(CCOPTSDEBUG) $(MODULESDEBUG) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
91 | + fi | |
92 | + @if [ -f $(VPATH)/$(OBJECTNAME).cc ] ; \ | |
93 | + then \ | |
94 | + echo $(CXX) $(CCOPTSDEBUG) $(MODULESDEBUG) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
95 | + $(CXX) $(CCOPTSDEBUG) $(MODULESDEBUG) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
96 | + fi | |
97 | + @if [ -f $(VPATH)/$(OBJECTNAME).ccm ] ; \ | |
98 | + then \ | |
99 | + echo "MICO"; \ | |
100 | + echo $(MICOLD) $(CCOPTSDEBUG) $(MODULESDEBUG) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
101 | + $(MICOLD) $(CCOPTSDEBUG) $(MODULESDEBUG) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
102 | + fi | |
103 | + @if [ -f $(VPATH)/$(OBJECTNAME).cu ] ; \ | |
104 | + then \ | |
105 | + echo $(CC) $(CCOPTSDEBUG) $(MODULESDEBUG) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
106 | + $(CC) $(CCOPTSDEBUG) $(MODULESDEBUG) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ ; \ | |
107 | + fi | |
108 | + | |
109 | +$(OBJECTNAME).cudagdb: $(MODULESCUDAGDB) $(LIBFILESDEBUG) | |
110 | + echo $(NVCC) "$(NVCCOPTSCUDAGDB) $(MODULESCUDAGDB) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@" | |
111 | + $(NVCC) $(NVCCOPTSCUDAGDB) $(MODULESCUDAGDB) $(LIBFILESDEBUG) $(EXTRA_LIB) $(KHOROS_LIBS) $(LIBPVM) $(STANDARDLIB) $(HOSTDEPENDENTLIB) -o $@ | |
112 | + | |
113 | +include ./.Depend | |
114 | +include $(EOS_HOME)/src/$(WORLDNAME)/$(CLASSNAME)/$(OBJECTNAME)/Config/Target.inc |
@@ -0,0 +1 @@ | ||
1 | +../../../../../hostdepend/X86MAC64/src/Tools/mrcImage/mrcImageAutoRotationAverage/src/X86MAC64 | |
\ No newline at end of file |
@@ -26,19 +26,12 @@ typedef enum lmrcImageAutoRotationCorrelationMethod { | ||
26 | 26 | } lmrcImageAutoRotationCorrelationMethod; |
27 | 27 | |
28 | 28 | typedef struct lmrcImageAutoRotationCorrelationInfo { |
29 | +/* Input */ | |
29 | 30 | int iter; /* iteration */ |
30 | 31 | int nRot; /* Rotation */ |
31 | - lmrcImageAutoRotationCorrelationMethod Method; | |
32 | - float max; | |
33 | - float maxTheta; | |
34 | - mrcImageParaTypeRealCoord maxP; | |
35 | - mrcImageInformation corInfo; | |
36 | - lmrcImageSSDAInfo SSDAInfo; | |
37 | - float EuclidDistance; | |
38 | - float LinearCorrelation; | |
32 | + lmrcImageAutoRotationCorrelationMethod Method; /* Correlation Method */ | |
39 | 33 | |
40 | - /* Restriction Rotation Area */ | |
41 | - int flagRestrictionArea; | |
34 | + int flagRestrictionArea; | |
42 | 35 | float thetaMin; |
43 | 36 | float thetaMax; |
44 | 37 |
@@ -51,6 +44,15 @@ typedef struct lmrcImageAutoRotationCorrelationInfo { | ||
51 | 44 | int flagXshiftOnly; |
52 | 45 | int flagNoShift; |
53 | 46 | |
47 | +/* Output */ | |
48 | + float max; // | |
49 | + float maxTheta; // | |
50 | + mrcImageParaTypeRealCoord maxP; | |
51 | + mrcImageInformation corInfo; | |
52 | + lmrcImageSSDAInfo SSDAInfo; | |
53 | + float EuclidDistance; | |
54 | + float LinearCorrelation; | |
55 | + | |
54 | 56 | } lmrcImageAutoRotationCorrelationInfo; |
55 | 57 | |
56 | 58 | typedef struct lmrcImageCorrelationRefinementInfo { |
@@ -26,19 +26,12 @@ typedef enum lmrcImageAutoRotationCorrelationMethod { | ||
26 | 26 | } lmrcImageAutoRotationCorrelationMethod; |
27 | 27 | |
28 | 28 | typedef struct lmrcImageAutoRotationCorrelationInfo { |
29 | +/* Input */ | |
29 | 30 | int iter; /* iteration */ |
30 | 31 | int nRot; /* Rotation */ |
31 | - lmrcImageAutoRotationCorrelationMethod Method; | |
32 | - float max; | |
33 | - float maxTheta; | |
34 | - mrcImageParaTypeRealCoord maxP; | |
35 | - mrcImageInformation corInfo; | |
36 | - lmrcImageSSDAInfo SSDAInfo; | |
37 | - float EuclidDistance; | |
38 | - float LinearCorrelation; | |
32 | + lmrcImageAutoRotationCorrelationMethod Method; /* Correlation Method */ | |
39 | 33 | |
40 | - /* Restriction Rotation Area */ | |
41 | - int flagRestrictionArea; | |
34 | + int flagRestrictionArea; | |
42 | 35 | float thetaMin; |
43 | 36 | float thetaMax; |
44 | 37 |
@@ -51,6 +44,15 @@ typedef struct lmrcImageAutoRotationCorrelationInfo { | ||
51 | 44 | int flagXshiftOnly; |
52 | 45 | int flagNoShift; |
53 | 46 | |
47 | +/* Output */ | |
48 | + float max; // | |
49 | + float maxTheta; // | |
50 | + mrcImageParaTypeRealCoord maxP; | |
51 | + mrcImageInformation corInfo; | |
52 | + lmrcImageSSDAInfo SSDAInfo; | |
53 | + float EuclidDistance; | |
54 | + float LinearCorrelation; | |
55 | + | |
54 | 56 | } lmrcImageAutoRotationCorrelationInfo; |
55 | 57 | |
56 | 58 | typedef struct lmrcImageCorrelationRefinementInfo { |
@@ -172,3 +172,11 @@ WORLDNAME=Tools | ||
172 | 172 | WORLDNAME=Tools |
173 | 173 | WORLDNAME=Tools |
174 | 174 | WORLDNAME=Tools |
175 | +WORLDNAME=Tools | |
176 | +WORLDNAME=Tools | |
177 | +WORLDNAME=Tools | |
178 | +WORLDNAME=Tools | |
179 | +WORLDNAME=Tools | |
180 | +WORLDNAME=Tools | |
181 | +WORLDNAME=Tools | |
182 | +WORLDNAME=Tools |
@@ -47,6 +47,7 @@ mrcImageAssignedToTFofPDB \ | ||
47 | 47 | mrcImageAutoCorrelationWithWindowing \ |
48 | 48 | mrcImageAutoFilamentExtract \ |
49 | 49 | mrcImageAutoFilamentExtractResultAnalysis \ |
50 | +mrcImageAutoRotationAverage \ | |
50 | 51 | mrcImageAutoRotationCorrelation \ |
51 | 52 | mrcImageAutoRotationCorrelation3D \ |
52 | 53 | mrcImageAutoRotationCorrelationResultPrint \ |
@@ -0,0 +1,4 @@ | ||
1 | +OBJECTNAME = mrcImageAutoRotationAverage | |
2 | +EXTRA_LIB = | |
3 | +EXTRA_CCOPTS = | |
4 | +EXTRA_INC = |
@@ -0,0 +1,15 @@ | ||
1 | +# OptionControlFile | |
2 | +# FileFormat | |
3 | +"-i","-i[nput]","Input: Ins","Essential","1","1","In","inFileList::mrcImage","stdin" | |
4 | +"-r","-r[eferenc]","Input: Ref","Optional","1","1","Ref","inFile::mrcImage","NULL" | |
5 | +"-o","-o[utput]","Output:Average","Essential","1","1","Out","outFile::mrcImage","NULL" | |
6 | +"-range","-range","Mode","Optional","4","1","Min","Real","0.0","2","Max","Real","360.0","3","Delta","Real","5.0","4","Iter","Integer","2" | |
7 | +"-iter","-iter","iteration for rotation","Optional","1","1","iter","Integer","2" | |
8 | +"-M","-M[odeCorrelation]","Mode: Correlation","Optional","1","1","CorMode","Integer","16" | |
9 | +"-Method","-Method[Correlation]","Method: Correlation","Optional","1","1","Method","Integer","0" | |
10 | +"-Periodic","-Periodic","Periodic","Optional","0" | |
11 | +"-maxIter","-maxIter[aration]","MaxIteration","Optional","1","1","maxIter","Integer","10" | |
12 | +"-rmsd","-rmsd","rmsd","Optional","1","1","rmsd","Real","1e-2" | |
13 | +"-log","-log","logFile","Optional","1","1","Log","inFile::ASCII","stdout" | |
14 | +"-c","-c[onfig]","ConfigurationFile","Optional","1","1","configFile","inFile","NULL" | |
15 | +"-m","-m[ode]","Mode","Optional","1","1","mode","Integer","0" |
@@ -0,0 +1 @@ | ||
1 | +/Users/tacyas/Eos/src/Config/Template/ToolsTemplate.Dir/Makefile | |
\ No newline at end of file |
@@ -0,0 +1 @@ | ||
1 | +/Users/tacyas/Eos/src/Config/Template/ToolsTemplate.Dir/doc/Makefile | |
\ No newline at end of file |
@@ -0,0 +1,6 @@ | ||
1 | +#ifndef CONFIG_H | |
2 | +#define CONFIG_H | |
3 | + | |
4 | +#include "../inc/mrcImageAutoRotationAverage.h" | |
5 | + | |
6 | +#endif /* CONFIG_H */ |
@@ -0,0 +1,85 @@ | ||
1 | +#ifndef MRCIMAGEAUTOROTATIONAVERAGE_H | |
2 | +#define MRCIMAGEAUTOROTATIONAVERAGE_H | |
3 | +#include <stdio.h> | |
4 | +#include <stdlib.h> | |
5 | + | |
6 | +#define OPTION_FLAG '-' | |
7 | +#define OPTION_FLAG_POS (0) | |
8 | +#define OPTION_POS (1) | |
9 | + | |
10 | + | |
11 | + | |
12 | + | |
13 | +typedef struct mrcImageAutoRotationAverageInfo { | |
14 | + long flagRedirect; | |
15 | + | |
16 | + long flagIn; | |
17 | + char** In; | |
18 | + char* InList; | |
19 | + FILE** fptIn; | |
20 | + FILE* fptInList; | |
21 | + | |
22 | + long flagRef; | |
23 | + char* Ref; | |
24 | + FILE* fptRef; | |
25 | + | |
26 | + long flagOut; | |
27 | + char* Out; | |
28 | + FILE* fptOut; | |
29 | + | |
30 | + long flagMin; | |
31 | + float Min; | |
32 | + | |
33 | + long flagMax; | |
34 | + float Max; | |
35 | + | |
36 | + long flagDelta; | |
37 | + float Delta; | |
38 | + | |
39 | + long flagIter; | |
40 | + long Iter; | |
41 | + | |
42 | + long flagiter; | |
43 | + long iter; | |
44 | + | |
45 | + long flagCorMode; | |
46 | + long CorMode; | |
47 | + | |
48 | + long flagMethod; | |
49 | + long Method; | |
50 | + | |
51 | + long Periodic; | |
52 | + | |
53 | + long flagmaxIter; | |
54 | + long maxIter; | |
55 | + | |
56 | + long flagrmsd; | |
57 | + float rmsd; | |
58 | + | |
59 | + long flagLog; | |
60 | + char* Log; | |
61 | + FILE* fptLog; | |
62 | + | |
63 | + long flagconfigFile; | |
64 | + char* configFile; | |
65 | + FILE* fptconfigFile; | |
66 | + | |
67 | + long flagmode; | |
68 | + long mode; | |
69 | + | |
70 | +} mrcImageAutoRotationAverageInfo; | |
71 | +#ifdef __cplusplus | |
72 | +extern "C" { | |
73 | +#endif | |
74 | +extern void argCheck(mrcImageAutoRotationAverageInfo* info, int argc, char* avgv[]); | |
75 | +extern void khorosInit(int argc, char* avgv[]); | |
76 | +extern void init0(mrcImageAutoRotationAverageInfo* info); | |
77 | +extern void init1(mrcImageAutoRotationAverageInfo* info); | |
78 | +extern void usage(char* usage); | |
79 | +extern void additionalUsage(void); | |
80 | +extern void htmlBeforeUsage(char* usage); | |
81 | +extern void htmlAfterUsage(char* usage); | |
82 | +#ifdef __cplusplus | |
83 | +}; | |
84 | +#endif | |
85 | +#endif /* MRCIMAGEAUTOROTATIONAVERAGE_H */ |
@@ -0,0 +1,427 @@ | ||
1 | +include ../Config/Define.inc | |
2 | +include ../../Config/Define.inc | |
3 | +include ../../../Config/Define.inc | |
4 | +include ../../../../Config/Define.inc | |
5 | + | |
6 | +EOSHOME=../../../../../ | |
7 | +DSTDIR=$(EOSHOME)/bin | |
8 | +DSTDOC=$(EOSHOME)/doc | |
9 | +DSTTAR=$(EOSHOME)/tar | |
10 | + | |
11 | +INCFILES = | |
12 | + | |
13 | +LIBFILES = \ | |
14 | + $(LIBPREFIX)EosObjects$(LIBSUFFIX) | |
15 | + | |
16 | +LIBFILESDEBUG = \ | |
17 | + $(LIBPREFIX)EosObjects.debug$(LIBSUFFIX) | |
18 | + | |
19 | +SRCC = \ | |
20 | + $(OBJECTNAME).c \ | |
21 | + init.c \ | |
22 | + argCheck.c \ | |
23 | + usage.c \ | |
24 | + util.c \ | |
25 | + | |
26 | +SRCCXX = \ | |
27 | + $(OBJECTNAME).cc \ | |
28 | + init.cc \ | |
29 | + argCheck.cc \ | |
30 | + usage.cc \ | |
31 | + util.cc \ | |
32 | + | |
33 | +MODULES = \ | |
34 | + $(OBJECTNAME).o \ | |
35 | + init.o \ | |
36 | + argCheck.o \ | |
37 | + usage.o \ | |
38 | + util.o \ | |
39 | + | |
40 | +REALMODULES = \ | |
41 | + $(OSTYPE)/$(OBJECTNAME).o \ | |
42 | + $(OSTYPE)/init.o \ | |
43 | + $(OSTYPE)/argCheck.o \ | |
44 | + $(OSTYPE)/usage.o \ | |
45 | + $(OSTYPE)/util.o | |
46 | + | |
47 | +MODULESDEBUG = \ | |
48 | + $(OBJECTNAME).debugo \ | |
49 | + init.debugo \ | |
50 | + argCheck.debugo \ | |
51 | + usage.debugo \ | |
52 | + util.debugo \ | |
53 | + | |
54 | +REALMODULESDEBUG = \ | |
55 | + $(OSTYPE)/$(OBJECTNAME).debugo \ | |
56 | + $(OSTYPE)/init.debugo \ | |
57 | + $(OSTYPE)/argCheck.debugo \ | |
58 | + $(OSTYPE)/usage.debugo \ | |
59 | + $(OSTYPE)/util.debugo | |
60 | + | |
61 | + | |
62 | +all: $(OSTYPE)/$(OBJECTNAME) | |
63 | + if [ ! -L $(OSTYPE) ] ; then \ | |
64 | + moveHostdependent; \ | |
65 | + fi | |
66 | + | |
67 | +debug: $(OSTYPE)/$(OBJECTNAME).debug | |
68 | + | |
69 | +cudagdb: $(OSTYPE)/$(OBJECTNAME).cudagdb | |
70 | + | |
71 | + | |
72 | +$(OSTYPE)/$(OBJECTNAME):: | |
73 | + @$(RM) -f $(OSTYPE)/Makefile ; \ | |
74 | + $(CP) $(EOS_HOME)/src/Config/Template/$(WORLDNAME)Template.Dir/src/ARCH/Makefile $(OSTYPE)/Makefile ; \ | |
75 | + cd $(OSTYPE); \ | |
76 | + $(MAKE) $(OBJECTNAME) WORLDNAME=$(WORLDNAME) CLASSNAME=$(CLASSNAME) OBJECTNAME=$(OBJECTNAME) | |
77 | + | |
78 | +$(OSTYPE)/$(OBJECTNAME).debug:: | |
79 | + @$(RM) -f $(OSTYPE)/Makefile ; \ | |
80 | + $(CP) $(EOS_HOME)/src/Config/Template/$(WORLDNAME)Template.Dir/src/ARCH/Makefile $(OSTYPE)/Makefile ; \ | |
81 | + cd $(OSTYPE); \ | |
82 | + $(MAKE) $(OBJECTNAME).debug WORLDNAME=$(WORLDNAME) CLASSNAME=$(CLASSNAME) OBJECTNAME=$(OBJECTNAME) | |
83 | + | |
84 | +$(OSTYPE)/$(OBJECTNAME).cudagdb:: | |
85 | + @$(RM) -f $(OSTYPE)/Makefile ; \ | |
86 | + $(CP) $(EOS_HOME)/src/Config/Template/$(WORLDNAME)Template.Dir/src/ARCH/Makefile $(OSTYPE)/Makefile ; \ | |
87 | + cd $(OSTYPE); \ | |
88 | + $(MAKE) $(OBJECTNAME).cudagdb WORLDNAME=$(WORLDNAME) CLASSNAME=$(CLASSNAME) OBJECTNAME=$(OBJECTNAME) | |
89 | + | |
90 | +cvsupdate:: | |
91 | + cvs -d $(EOS_CVSROOT) update -d | |
92 | + | |
93 | +cvscommit:: | |
94 | + cvs -d $(EOS_CVSROOT) commit | |
95 | + | |
96 | +edit: | |
97 | + @if [ -r $(OBJECTNAME).c ]; \ | |
98 | + then \ | |
99 | + sccsEdit $(OBJECTNAME).c; \ | |
100 | + else \ | |
101 | + echo "Source files are already editable"; \ | |
102 | + fi | |
103 | + @if [ -r wish/$(OBJECTNAME).wish ]; \ | |
104 | + then \ | |
105 | + cd wish; sccsEdit $(OBJECTNAME).wish; \ | |
106 | + else \ | |
107 | + echo "Source files (wish) are already editable."; \ | |
108 | + fi | |
109 | + @if [ -r ruby/$(OBJECTNAME).rb ]; \ | |
110 | + then \ | |
111 | + cd ruby; sccsEdit $(OBJECTNAME).rb; \ | |
112 | + else \ | |
113 | + echo "Source files (ruby) are already editable."; \ | |
114 | + fi | |
115 | + @if [ -r perl/$(OBJECTNAME).pl ]; \ | |
116 | + then \ | |
117 | + cd perl; sccsEdit $(OBJECTNAME).pl ; \ | |
118 | + else \ | |
119 | + echo "Source files (perl) are already editable."; \ | |
120 | + fi | |
121 | + @if [ -r ../Config/OptionControlFile ]; \ | |
122 | + then \ | |
123 | + cd ../Config; sccsEdit OptionControlFile; \ | |
124 | + else \ | |
125 | + echo "OptionControlFile are already editable."; \ | |
126 | + fi | |
127 | + | |
128 | +unedit: | |
129 | + @if [ -w $(OBJECTNAME).c ]; \ | |
130 | + then \ | |
131 | + sccsUnedit $(OBJECTNAME).c; \ | |
132 | + else \ | |
133 | + echo "Source files are not editable"; \ | |
134 | + fi | |
135 | + @if [ -w wish/$(OBJECTNAME).wish ]; \ | |
136 | + then \ | |
137 | + cd wish; sccsUnedit $(OBJECTNAME).wish; \ | |
138 | + else \ | |
139 | + echo "Source files (wish) are not editable."; \ | |
140 | + fi | |
141 | + @if [ -w ruby/$(OBJECTNAME).rb]; \ | |
142 | + then \ | |
143 | + cd ruby; sccsUnedit $(OBJECTNAME).rb; \ | |
144 | + else \ | |
145 | + echo "Source files (ruby) are not editable."; \ | |
146 | + fi | |
147 | + @if [ -w perl/$(OBJECTNAME).pl ]; \ | |
148 | + then \ | |
149 | + cd perl; sccsUnedit $(OBJECTNAME).pl ; \ | |
150 | + else \ | |
151 | + echo "Source files (ruby) are not editable."; \ | |
152 | + fi | |
153 | + @if [ -w ../Config/OptionControlFile ]; \ | |
154 | + then \ | |
155 | + cd ../Config; sccsUnedit OptionControlFile; \ | |
156 | + else \ | |
157 | + echo "OptionControlFile are not editable."; \ | |
158 | + fi | |
159 | + | |
160 | +report: | |
161 | + @if [ -r $(OBJECTNAME).c ]; \ | |
162 | + then \ | |
163 | + sccsReport $(OBJECTNAME).c; \ | |
164 | + else \ | |
165 | + echo "Source files are already editable"; \ | |
166 | + fi | |
167 | + @if [ -r wish/$(OBJECTNAME).wish ]; \ | |
168 | + then \ | |
169 | + cd wish; sccsReport $(OBJECTNAME).wish; \ | |
170 | + else \ | |
171 | + echo "Source files (wish) are already editable."; \ | |
172 | + fi | |
173 | + @if [ -r ruby/$(OBJECTNAME).rb ]; \ | |
174 | + then \ | |
175 | + cd ruby; sccsReport $(OBJECTNAME).rb; \ | |
176 | + else \ | |
177 | + echo "Source files (ruby) are already editable."; \ | |
178 | + fi | |
179 | + @if [ -r perl/$(OBJECTNAME).pl ] ; \ | |
180 | + then \ | |
181 | + cd perl; sccsReport $(OBJECTNAME).pl ; \ | |
182 | + else \ | |
183 | + echo "Source files (perl) are already editable."; \ | |
184 | + fi | |
185 | + @if [ -r ../Config/OptionControlFile ]; \ | |
186 | + then \ | |
187 | + cd ../Config; sccsReport OptionControlFile; \ | |
188 | + else \ | |
189 | + echo "OptionControlFile are already editable."; \ | |
190 | + fi | |
191 | + | |
192 | +clean : | |
193 | + rm -f *.debugo $(OSTYPE)/*.debugo *.cudagdbo $(OSTYPE)/*.cudagdbo *.o $(OSTYPE)/*.o *.linkinfo $(OSTYPE)/*.linkinfo \ | |
194 | + $(OSTYPE)/$(OBJECTNAME) $(OSTYPE)/*.$(OSTYPE) \ | |
195 | + $(OSTYPE)/$(OBJECTNAME).debug $(OSTYPE)/*.$(OSTYPE).debug \ | |
196 | + $(OSTYPE)/$(OBJECTNAME).cudagdb $(OSTYPE)/*.$(OSTYPE).cudagdb \ | |
197 | + $(OSTYPE)/$(OBJECTNAME).linkinfo $(OSTYPE)/*.$(OSTYPE).linkinfo \ | |
198 | + *.bak *.$(OSTYPE) core | |
199 | + | |
200 | +install: install-bin install-doc install-wish install-ruby install-shell install-perl | |
201 | + @if [ dummy$(KHOROS_KENGOBJ) != dummy ] ; \ | |
202 | + then \ | |
203 | + if [ -x $(KHOROS_KGENOBJ) ] ; \ | |
204 | + then \ | |
205 | + make install-khoros ; \ | |
206 | + fi; \ | |
207 | + fi | |
208 | + | |
209 | +install-bin:$(DSTDIR)/$(OSTYPE)/$(OBJECTNAME) | |
210 | + | |
211 | +$(DSTDIR)/$(OSTYPE)/$(OBJECTNAME):$(OSTYPE)/$(OBJECTNAME) $(DSTDIR)/$(OBJECTNAME) | |
212 | + @echo ---- Installing to bin | |
213 | + @echo $(DSTDIR)/$(OSTYPE)/$(OBJECTNAME) | |
214 | + @if [ ! -d $(DSTDIR)/$(OSTYPE) ]; \ | |
215 | + then \ | |
216 | + mkdir $(DSTDIR)/$(OSTYPE); \ | |
217 | + fi | |
218 | + @if [ -x $(OSTYPE)/$(OBJECTNAME) ]; \ | |
219 | + then \ | |
220 | + echo "Compilation is complete"; \ | |
221 | + $(RM) -f $(DSTDIR)/$(OSTYPE)/$(OBJECTNAME); \ | |
222 | + $(CD) $(OSTYPE); $(INSTALL) -m 555 $(OBJECTNAME) ../$(DSTDIR)/$(OSTYPE); \ | |
223 | + $(CHMOD) 555 ../$(DSTDIR)/$(OSTYPE)/$(OBJECTNAME); \ | |
224 | + else \ | |
225 | + echo "Compilation is incomplete. $(OBJECTNAME)"; \ | |
226 | + fi | |
227 | + @echo ---- end of bin | |
228 | + | |
229 | +install-wish: | |
230 | + @if [ -d wish ]; \ | |
231 | + then \ | |
232 | + echo "---- Tcl/Tk file Install"; \ | |
233 | + if [ ! -d $(DSTDIR)/wish/$(OBJECTNAME) ]; \ | |
234 | + then \ | |
235 | + mkdir $(DSTDIR)/wish/$(OBJECTNAME) ; \ | |
236 | + fi ; \ | |
237 | + $(CP) -f wish/* $(DSTDIR)/wish/$(OBJECTNAME); \ | |
238 | + $(CHMOD) 555 $(DSTDIR)/wish/$(OBJECTNAME)/* ;\ | |
239 | + touch $(DSTDIR)/wish/$(OBJECTNAME)/tclIndex;\ | |
240 | + $(CHMOD) 666 $(DSTDIR)/wish/$(OBJECTNAME)/tclIndex;\ | |
241 | + echo "---- Tcl/Tk file Installed";\ | |
242 | + fi | |
243 | + | |
244 | +install-ruby: | |
245 | + @if [ -d ruby ]; \ | |
246 | + then \ | |
247 | + echo "---- Ruby/Tk file Install"; \ | |
248 | + if [ ! -d $(DSTDIR)/ruby/$(OBJECTNAME) ]; \ | |
249 | + then \ | |
250 | + mkdir $(DSTDIR)/ruby/$(OBJECTNAME) ; \ | |
251 | + fi ; \ | |
252 | + $(CP) -f ruby/* $(DSTDIR)/ruby/$(OBJECTNAME); \ | |
253 | + $(CHMOD) 555 $(DSTDIR)/ruby/$(OBJECTNAME)/* ; \ | |
254 | + echo "---- Ruby/Tk file Installed"; \ | |
255 | + fi | |
256 | + | |
257 | +install-perl: | |
258 | + @if [ -d perl ]; \ | |
259 | + then \ | |
260 | + echo "---- Perl/Tk file Install"; \ | |
261 | + if [ ! -d $(DSTDIR)/perl/$(OBJECTNAME) ]; \ | |
262 | + then \ | |
263 | + mkdir $(DSTDIR)/perl/$(OBJECTNAME) ; \ | |
264 | + fi; \ | |
265 | + $(CP) -f perl/* $(DSTDIR)/perl/$(OBJECTNAME); \ | |
266 | + $(CHMOD) 555 $(DSTDIR)/perl/$(OBJECTNAME)/* ; \ | |
267 | + echo "---- Perl/Tk file Installed"; \ | |
268 | + fi | |
269 | + | |
270 | +install-shell: | |
271 | + @if [ ! -d $(DSTDIR)/shell/$(OBJECTNAME) ]; \ | |
272 | + then \ | |
273 | + mkdir $(DSTDIR)/shell/$(OBJECTNAME) ; \ | |
274 | + fi | |
275 | + @if [ -d shell ]; \ | |
276 | + then \ | |
277 | + echo "---- Shell file Install"; \ | |
278 | + if [ ! -d $(DSTDIR)/shell/$(OBJECTNAME) ]; \ | |
279 | + then \ | |
280 | + mkdir $(DSTDIR)/shell/$(OBJECTNAME) ; \ | |
281 | + fi ; \ | |
282 | + $(CP) -f shell/* $(DSTDIR)/shell/$(OBJECTNAME); \ | |
283 | + $(CHMOD) 555 $(DSTDIR)/shell/$(OBJECTNAME)/*; \ | |
284 | + echo "---- Shell file Installed"; \ | |
285 | + fi | |
286 | + | |
287 | +install-khoros: | |
288 | + @echo Installing to khoros | |
289 | + @if [ ! -d ../../../../../objects/script/$(OBJECTNAME) -a -f $(KHOROS_KGENOBJ) ]; \ | |
290 | + then \ | |
291 | + echo kgenobj;\ | |
292 | + $(KHOROS_KGENOBJ) -tb Eos -oname $(OBJECTNAME) -type script -pane -cantata true -cat Eos -subcat $(CLASSNAME) -description $(OBJECTNAME) -bname $(OBJECTNAME) -form -lang ksh ; \ | |
293 | + fi | |
294 | + @if [ ! -d ../../../../../objects/script/$(OBJECTNAME) -a -f $(KHOROS_KSET) ]; \ | |
295 | + then \ | |
296 | + $(KHOROS_KSET) -tb Eos -oname $(OBJECTNAME) -icon $(OBJECTNAME) ; \ | |
297 | + fi | |
298 | + @if [ -d ../../../../../objects/script/$(OBJECTNAME) -a -f $(KHOROS_KSET) ]; \ | |
299 | + then \ | |
300 | + $(CHMOD) -R 775 ../../../../../objects/script/$(OBJECTNAME) ; \ | |
301 | + if [ $? ] ; \ | |
302 | + then \ | |
303 | + echo "-- setting khoros ---" ; \ | |
304 | + if [ -d ../../../../../objects/script/$(OBJECTNAME)/uis/ ] ; \ | |
305 | + then \ | |
306 | + $(CD) ../../../../../objects/script/$(OBJECTNAME)/uis/ ; \ | |
307 | + $(RM) -f $(OBJECTNAME).pane ; \ | |
308 | + $(LN) -s ../../../../src/Tools/$(CLASSNAME)/$(OBJECTNAME)/src/$(OBJECTNAME).pane $(OBJECTNAME).pane; \ | |
309 | + $(CD) ../../ ; \ | |
310 | + $(CHMOD) -R 555 $(OBJECTNAME); \ | |
311 | + else \ | |
312 | + echo "../../../../../objects/script/$(OBJECTNAME)/uis/ does not exist."; \ | |
313 | + fi ; \ | |
314 | + else \ | |
315 | + echo "Failed !!: Cannot chage mode in installing $(OBJECTNAME) to khoros system"; \ | |
316 | + fi ; \ | |
317 | + echo "-- end of khoros-installing"; \ | |
318 | + fi | |
319 | + | |
320 | +install-doc: html | |
321 | + @if [ ! -d $(DSTDOC)/SmallTools ]; \ | |
322 | + then \ | |
323 | + mkdir $(DSTDOC)/SmallTools ;\ | |
324 | + fi | |
325 | + @if [ -f $(DSTDOC)/SmallTools/$(OBJECTNAME).html ]; \ | |
326 | + then \ | |
327 | + $(RM) -f $(DSTDOC)/SmallTools/$(OBJECTNAME).html ;\ | |
328 | + fi | |
329 | + @$(CP) $(OBJECTNAME).html $(DSTDOC)/SmallTools/$(OBJECTNAME).html | |
330 | + @$(CHMOD) 444 $(DSTDOC)/SmallTools/$(OBJECTNAME).html | |
331 | + @if [ -f ../doc/*.html ]; \ | |
332 | + then \ | |
333 | + $(CP) ../doc/*.html $(DSTDOC)/SmallTools/ ;\ | |
334 | + fi | |
335 | + @$(CHMOD) 444 $(DSTDOC)/SmallTools/$(OBJECTNAME).html | |
336 | + @if [ -f $(DSTDOC)/SmallTools/Makefile ]; \ | |
337 | + then \ | |
338 | + cd $(DSTDOC)/SmallTools; $(MAKE); \ | |
339 | + fi | |
340 | + | |
341 | +html: $(OBJECTNAME).html | |
342 | + | |
343 | +configFileRead: | |
344 | + @ctrl2configFileRead $(CLASSNAME) $(OBJECTNAME) ../Config/OptionControlFile | |
345 | + | |
346 | +$(OBJECTNAME).html: $(OSTYPE)/$(OBJECTNAME) | |
347 | + @echo creating html | |
348 | + @$(OSTYPE)/$(OBJECTNAME) -html 2> $(OBJECTNAME).html.tmp | |
349 | + @sed -e s/$(OSTYPE)\\/// $(OBJECTNAME).html.tmp > $(OBJECTNAME).html | |
350 | + @$(RM) $(OBJECTNAME).html.tmp | |
351 | + | |
352 | +$(DSTDIR)/$(OBJECTNAME): $(OSTYPE)/$(OBJECTNAME) | |
353 | + @ln -s -f ../sbin/MachineIndependent $@ | |
354 | + | |
355 | +depend:: | |
356 | + @echo dependency checking now | |
357 | + @if [ ! -L $(OSTYPE) ] ; then \ | |
358 | + moveHostdependent; \ | |
359 | + fi | |
360 | + rm -f $(OSTYPE)/.Depend | |
361 | + #echo C | |
362 | + @if [ -f $(OBJECTNAME).c ] ; \ | |
363 | + then \ | |
364 | + echo "dependency: *.c"; \ | |
365 | + echo $(DEPENDCOMMAND) $(INCLUDEDIR) $(EXTRA_INC) $(EXTRA_DEFINE) *.c ; \ | |
366 | + $(DEPENDCOMMAND) $(INCLUDEDIR) $(EXTRA_INC) $(EXTRA_DEFINE) *.c >> $(OSTYPE)/.Depend ; \ | |
367 | + fi | |
368 | + #echo CC | |
369 | + @if [ -f $(OBJECTNAME).cc ] ; \ | |
370 | + then \ | |
371 | + echo "dependency: *.cc"; \ | |
372 | + echo $(DEPENDCOMMAND) $(INCLUDEDIR) $(EXTRA_INC) $(EXTRA_DEFINE) $(EXTRA_CCOPTS) *.cc ; \ | |
373 | + $(DEPENDCOMMAND) $(INCLUDEDIR) $(EXTRA_INC) $(EXTRA_DEFINE) $(EXTRA_CCOPTS) *.cc >> $(OSTYPE)/.Depend ; \ | |
374 | + fi | |
375 | + @if [ -f $(OBJECTNAME).ccm ] ; \ | |
376 | + then \ | |
377 | + echo "dependency: *.ccm"; \ | |
378 | + echo $(DEPENDCOMMAND) $(INCLUDEDIR) $(EXTRA_INC) $(EXTRA_DEFINE) $(EXTRA_CCOPTS) *.ccm ; \ | |
379 | + $(DEPENDCOMMAND) $(INCLUDEDIR) $(EXTRA_INC) $(EXTRA_DEFINE) $(EXTRA_CCOPTS) *.ccm >> $(OSTYPE)/.Depend ; \ | |
380 | + fi | |
381 | + @if [ -f $(OBJECTNAME).cu ] ; \ | |
382 | + then \ | |
383 | + echo "dependency: *.cu"; \ | |
384 | + echo $(DEPENDCOMMAND) $(INCLUDEDIR) $(EXTRA_INC) $(EXTRA_DEFINE) $(EXTRA_CCOPTS) *.cu ; \ | |
385 | + $(DEPENDCOMMAND) $(INCLUDEDIR) $(EXTRA_INC) $(EXTRA_DEFINE) $(EXTRA_CCOPTS) *.cu >> $(OSTYPE)/.Depend ; \ | |
386 | + fi | |
387 | + | |
388 | +update:../Config/OptionControlFile | |
389 | + maketool $(CLASSNAME) $(OBJECTNAME) update | |
390 | + | |
391 | +changeName:: | |
392 | + | |
393 | +Test:$(OSTYPE)/$(OBJECTNAME) TestDir | |
394 | + @if [ -f test/Makefile ] ; \ | |
395 | + then \ | |
396 | + cd test; make ; \ | |
397 | + else \ | |
398 | + echo "No test Makefile"; \ | |
399 | + fi | |
400 | + | |
401 | +TestDir:: | |
402 | + @if [ ! -d test ] ; \ | |
403 | + then \ | |
404 | + echo "Creating test dir"; \ | |
405 | + mkdir test; \ | |
406 | + fi | |
407 | + @if [ ! -f test/Makefile ] ; \ | |
408 | + then \ | |
409 | + echo "Creating Makefile"; \ | |
410 | + cd test; \ | |
411 | + protoTestMakefileCreate; \ | |
412 | + fi | |
413 | + @if [ ! -d test/data ]; \ | |
414 | + then \ | |
415 | + mkdir $(EOSHOME)/data/$(OBJECTNAME); \ | |
416 | + cd test; \ | |
417 | + ln -sf ../$(EOSHOME)/data/$(OBJECTNAME) data; \ | |
418 | + fi | |
419 | + | |
420 | +tar:: | |
421 | + cd $(DSTTAR); tar cvf Tools.$(CLASSNAME).$(OBJECTNAME).tar ../bin/$(OBJECTNAME) \ | |
422 | + ../bin/*/$(OBJECTNAME).* \ | |
423 | + ../src/Tools/$(CLASSNAME)/$(OBJECTNAME) \ | |
424 | + ; gzip Tools.$(CLASSNAME).$(OBJECTNAME).tar | |
425 | + | |
426 | +-include $(OSTYPE)/.Depend | |
427 | +-include ../Config/Target.inc |
@@ -0,0 +1 @@ | ||
1 | +../../../../../hostdepend/X86MAC64/src/Tools/mrcImage/mrcImageAutoRotationAverage/src/X86MAC64 | |
\ No newline at end of file |
@@ -0,0 +1,202 @@ | ||
1 | +#include <stdio.h> | |
2 | +#include <stdlib.h> | |
3 | +#include <string.h> | |
4 | +#include <math.h> | |
5 | +#include "../inc/config.h" | |
6 | +#include "genUtil.h" | |
7 | +#include "String.h" | |
8 | +#include "File.h" | |
9 | +#include "Memory.h" | |
10 | + | |
11 | + | |
12 | +void | |
13 | +argCheck(mrcImageAutoRotationAverageInfo* info, int argc, char* argv[]) | |
14 | +{ | |
15 | + long i; | |
16 | + char s[1024]; | |
17 | + FILE* fpt; | |
18 | + | |
19 | + if(NULL==(fpt=fopen(".EosLog", "a+"))) { | |
20 | + | |
21 | + } else { | |
22 | + for(i=0; i<argc; i++) { | |
23 | + fprintf(fpt, "%s ", argv[i]); | |
24 | + } | |
25 | + fprintf(fpt, "\n"); | |
26 | + fclose(fpt); | |
27 | + } | |
28 | + for(i=1; i<argc; i++) { | |
29 | + if(OPTION_FLAG==argv[i][OPTION_FLAG_POS]) { | |
30 | + SSWITCH(argv[i]+OPTION_POS) | |
31 | + SCASE("i") { | |
32 | + if(i+1<argc) { | |
33 | + info->InList = stringGetNthWord(argv[i+1], 1, " ,"); | |
34 | + i++; | |
35 | + info->flagIn++; | |
36 | + } else { | |
37 | + usage(argv[0]); | |
38 | + exit(EXIT_FAILURE); | |
39 | + } | |
40 | + SBREAK; | |
41 | + } | |
42 | + SCASE("r") { | |
43 | + if(i+1<argc) { | |
44 | + info->Ref = stringGetNthWord(argv[i+1], 1, " ,"); | |
45 | + i++; | |
46 | + info->flagRef++; | |
47 | + } else { | |
48 | + usage(argv[0]); | |
49 | + exit(EXIT_FAILURE); | |
50 | + } | |
51 | + SBREAK; | |
52 | + } | |
53 | + SCASE("o") { | |
54 | + if(i+1<argc) { | |
55 | + info->Out = stringGetNthWord(argv[i+1], 1, " ,"); | |
56 | + i++; | |
57 | + info->flagOut++; | |
58 | + } else { | |
59 | + usage(argv[0]); | |
60 | + exit(EXIT_FAILURE); | |
61 | + } | |
62 | + SBREAK; | |
63 | + } | |
64 | + SCASE("range") { | |
65 | + if(i+4<argc) { | |
66 | + info->Min = stringGetNthRealData(argv[i+1], 1, " ,"); | |
67 | + i++; | |
68 | + info->flagMin++; | |
69 | + info->Max = stringGetNthRealData(argv[i+1], 1, " ,"); | |
70 | + i++; | |
71 | + info->flagMax++; | |
72 | + info->Delta = stringGetNthRealData(argv[i+1], 1, " ,"); | |
73 | + i++; | |
74 | + info->flagDelta++; | |
75 | + info->Iter = stringGetNthIntegerData(argv[i+1], 1, " ,"); | |
76 | + i++; | |
77 | + info->flagIter++; | |
78 | + } else { | |
79 | + usage(argv[0]); | |
80 | + exit(EXIT_FAILURE); | |
81 | + } | |
82 | + SBREAK; | |
83 | + } | |
84 | + SCASE("iter") { | |
85 | + if(i+1<argc) { | |
86 | + info->iter = stringGetNthIntegerData(argv[i+1], 1, " ,"); | |
87 | + i++; | |
88 | + info->flagiter++; | |
89 | + } else { | |
90 | + usage(argv[0]); | |
91 | + exit(EXIT_FAILURE); | |
92 | + } | |
93 | + SBREAK; | |
94 | + } | |
95 | + SCASE("M") { | |
96 | + if(i+1<argc) { | |
97 | + info->CorMode = stringGetNthIntegerData(argv[i+1], 1, " ,"); | |
98 | + i++; | |
99 | + info->flagCorMode++; | |
100 | + } else { | |
101 | + usage(argv[0]); | |
102 | + exit(EXIT_FAILURE); | |
103 | + } | |
104 | + SBREAK; | |
105 | + } | |
106 | + SCASE("Method") { | |
107 | + if(i+1<argc) { | |
108 | + info->Method = stringGetNthIntegerData(argv[i+1], 1, " ,"); | |
109 | + i++; | |
110 | + info->flagMethod++; | |
111 | + } else { | |
112 | + usage(argv[0]); | |
113 | + exit(EXIT_FAILURE); | |
114 | + } | |
115 | + SBREAK; | |
116 | + } | |
117 | + SCASE("Periodic") { | |
118 | + if(i+0<argc) { | |
119 | + info->Periodic++; | |
120 | + } else { | |
121 | + usage(argv[0]); | |
122 | + exit(EXIT_FAILURE); | |
123 | + } | |
124 | + SBREAK; | |
125 | + } | |
126 | + SCASE("maxIter") { | |
127 | + if(i+1<argc) { | |
128 | + info->maxIter = stringGetNthIntegerData(argv[i+1], 1, " ,"); | |
129 | + i++; | |
130 | + info->flagmaxIter++; | |
131 | + } else { | |
132 | + usage(argv[0]); | |
133 | + exit(EXIT_FAILURE); | |
134 | + } | |
135 | + SBREAK; | |
136 | + } | |
137 | + SCASE("rmsd") { | |
138 | + if(i+1<argc) { | |
139 | + info->rmsd = stringGetNthRealData(argv[i+1], 1, " ,"); | |
140 | + i++; | |
141 | + info->flagrmsd++; | |
142 | + } else { | |
143 | + usage(argv[0]); | |
144 | + exit(EXIT_FAILURE); | |
145 | + } | |
146 | + SBREAK; | |
147 | + } | |
148 | + SCASE("log") { | |
149 | + if(i+1<argc) { | |
150 | + info->Log = stringGetNthWord(argv[i+1], 1, " ,"); | |
151 | + i++; | |
152 | + info->flagLog++; | |
153 | + } else { | |
154 | + usage(argv[0]); | |
155 | + exit(EXIT_FAILURE); | |
156 | + } | |
157 | + SBREAK; | |
158 | + } | |
159 | + SCASE("c") { | |
160 | + if(i+1<argc) { | |
161 | + info->configFile = stringGetNthWord(argv[i+1], 1, " ,"); | |
162 | + i++; | |
163 | + info->flagconfigFile++; | |
164 | + } else { | |
165 | + usage(argv[0]); | |
166 | + exit(EXIT_FAILURE); | |
167 | + } | |
168 | + SBREAK; | |
169 | + } | |
170 | + SCASE("m") { | |
171 | + if(i+1<argc) { | |
172 | + info->mode = stringGetNthIntegerData(argv[i+1], 1, " ,"); | |
173 | + i++; | |
174 | + info->flagmode++; | |
175 | + } else { | |
176 | + usage(argv[0]); | |
177 | + exit(EXIT_FAILURE); | |
178 | + } | |
179 | + SBREAK; | |
180 | + } | |
181 | + SCASE("h") { | |
182 | + usage(argv[0]); | |
183 | + exit(EXIT_SUCCESS); | |
184 | + break; | |
185 | + } | |
186 | + SCASE("html") { | |
187 | + htmlBeforeUsage(argv[0]); | |
188 | + usage(argv[0]); | |
189 | + htmlAfterUsage(argv[0]); | |
190 | + exit(EXIT_SUCCESS); | |
191 | + break; | |
192 | + } | |
193 | + SDEFAULT { | |
194 | + fprintf(stderr, "Not Supported Options: :%s\n", argv[i]); | |
195 | + usage(argv[0]); | |
196 | + exit(EXIT_FAILURE); | |
197 | + break; | |
198 | + } | |
199 | + SSWITCHEND; | |
200 | + } | |
201 | + } | |
202 | +} |
@@ -0,0 +1,153 @@ | ||
1 | +#include <stdio.h> | |
2 | +#include <stdlib.h> | |
3 | +#include <string.h> | |
4 | +#include <math.h> | |
5 | +#include "../inc/config.h" | |
6 | +#include "genUtil.h" | |
7 | +#include "String.h" | |
8 | +#include "File.h" | |
9 | +#include "Memory.h" | |
10 | + | |
11 | + | |
12 | +void | |
13 | +init0(mrcImageAutoRotationAverageInfo* info) | |
14 | +{ | |
15 | + info->fptIn = stdin; info->fptInList = stdin; info->flagIn = 0; | |
16 | + info->fptRef = NULL; info->flagRef = 0; | |
17 | + info->fptOut = NULL; info->flagOut = 0; | |
18 | + info->Min = 0.0; info->flagMin = 0; | |
19 | + info->Max = 360.0; info->flagMax = 0; | |
20 | + info->Delta = 5.0; info->flagDelta = 0; | |
21 | + info->Iter = 2; info->flagIter = 0; | |
22 | + info->iter = 2; info->flagiter = 0; | |
23 | + info->CorMode = 16; info->flagCorMode = 0; | |
24 | + info->Method = 0; info->flagMethod = 0; | |
25 | + info->Periodic=0; | |
26 | + info->maxIter = 10; info->flagmaxIter = 0; | |
27 | + info->rmsd = 1e-2; info->flagrmsd = 0; | |
28 | + info->fptLog = stdout; info->flagLog = 0; | |
29 | + info->fptconfigFile = NULL; info->flagconfigFile = 0; | |
30 | + info->mode = 0; info->flagmode = 0; | |
31 | +} | |
32 | + | |
33 | +void | |
34 | +init1(mrcImageAutoRotationAverageInfo* info) | |
35 | +{ | |
36 | + char s[1024]; | |
37 | + int i; | |
38 | + if(!info->flagIn) { | |
39 | + stringGetFromFile(s, "In", stdin, stdout, 0); | |
40 | + info->InList = stringGetNthWord(s, 1, " ,\t"); | |
41 | + info->flagIn++; | |
42 | + } | |
43 | + if(info->flagIn) { | |
44 | + info->fptInList = fileOpen(info->InList, "r"); | |
45 | + fseek(info->fptInList, 0L, SEEK_SET); | |
46 | + i=0; | |
47 | + while(NULL!=stringGetFromFile(s, "", info->fptInList, stdout, 1)) { | |
48 | + i++; | |
49 | + } | |
50 | + info->fptIn = (FILE**)memoryAllocate(i*sizeof(FILE*), "in init1"); | |
51 | + info->In = (char**)memoryAllocate(i*sizeof(char*), "in init1"); | |
52 | + info->flagIn = i; | |
53 | + fseek(info->fptInList, 0L, SEEK_SET); | |
54 | + i=0; | |
55 | + while(NULL!=stringGetFromFile(s, "", info->fptInList, stdout, 1)) { | |
56 | + info->In[i] = stringGetNthWord(s, 1, " ,\t"); | |
57 | + info->fptIn[i] = fileOpen(info->In[i],"r"); | |
58 | + i++; | |
59 | + } | |
60 | + } | |
61 | + | |
62 | + if(info->flagRef) { | |
63 | + info->fptRef = fileOpen(info->Ref, "r"); | |
64 | + } | |
65 | + | |
66 | + if(!info->flagOut) { | |
67 | + stringGetFromFile(s, "Out", stdin, stdout, 0); | |
68 | + info->Out = stringGetNthWord(s, 1, " ,\t"); | |
69 | + info->flagOut++; | |
70 | + } | |
71 | + if(info->flagOut) { | |
72 | + info->fptOut = fileOpen(info->Out, "w"); | |
73 | + } | |
74 | + | |
75 | + if(info->flagMin) { | |
76 | + } | |
77 | + | |
78 | + if(info->flagMax) { | |
79 | + } | |
80 | + | |
81 | + if(info->flagDelta) { | |
82 | + } | |
83 | + | |
84 | + if(info->flagIter) { | |
85 | + } | |
86 | + | |
87 | + if(info->flagiter) { | |
88 | + } | |
89 | + | |
90 | + if(info->flagCorMode) { | |
91 | + } | |
92 | + | |
93 | + if(info->flagMethod) { | |
94 | + } | |
95 | + | |
96 | + if(info->flagmaxIter) { | |
97 | + } | |
98 | + | |
99 | + if(info->flagrmsd) { | |
100 | + } | |
101 | + | |
102 | + if(info->flagLog) { | |
103 | + info->fptLog = fileOpen(info->Log, "r"); | |
104 | + } | |
105 | + | |
106 | + if(info->flagconfigFile) { | |
107 | + info->fptconfigFile = fileOpen(info->configFile, "r"); | |
108 | + } | |
109 | + | |
110 | + if(info->flagmode) { | |
111 | + } | |
112 | + | |
113 | +} | |
114 | +#ifdef KHOROS | |
115 | +#include <stdio.h> | |
116 | +#include "bootstrap.h" | |
117 | +#include "dataserv.h" | |
118 | +#include "datamanip.h" | |
119 | +extern void func_usage_additions(void); | |
120 | +extern void func_free_args(kexit_status status, kaddr client_data); | |
121 | +extern void func_get_args(kform* pane); | |
122 | + | |
123 | +void | |
124 | +func_usage_additions(void) | |
125 | +{ | |
126 | +} | |
127 | +void | |
128 | +func_free_args(kexit_status status, kaddr client_data) | |
129 | +{ | |
130 | +} | |
131 | +void | |
132 | +func_get_args(kform* pane) | |
133 | +{ | |
134 | +} | |
135 | +void | |
136 | +khorosInit(int argc, char* argv[]) | |
137 | +{ | |
138 | + char* eospath; | |
139 | + char panepath[1024]; | |
140 | + FILE* fpt; | |
141 | + | |
142 | + eospath = getenv("EOS_HOME"); | |
143 | + sprintf(panepath, "%s/src/Tools/mrcImage/mrcImageAutoRotationAverage/src/mrcImageAutoRotationAverage.pane", eospath); | |
144 | + khoros_initialize(argc, argv, "EOS"); | |
145 | + fpt = fopen(panepath, "r"); if(NULL!=fpt) { | |
146 | + fclose(fpt); | |
147 | + kclui_initialize(panepath, KGEN_NONE, "EOS", "mrcImageAutoRotationAverage", | |
148 | + func_usage_additions, | |
149 | + func_get_args, | |
150 | + func_free_args); | |
151 | + } | |
152 | +} | |
153 | +#endif /* KHOROS */ |
@@ -0,0 +1,103 @@ | ||
1 | +/* | |
2 | +# mrcImageAutoRotationAverage : $Revision$ | |
3 | +# $Date$ | |
4 | +# Created by $Author$ | |
5 | +# Usage : mrcImageAutoRotationAverage | |
6 | +# Attention | |
7 | +# $Loccker$ | |
8 | +# $State$ | |
9 | +# | |
10 | +*/ | |
11 | +#include <stdio.h> | |
12 | +#include <stdlib.h> | |
13 | +#include <string.h> | |
14 | +#include <math.h> | |
15 | +#define GLOBAL_DECLARATION | |
16 | +#include "../inc/config.h" | |
17 | + | |
18 | +#define DEBUG | |
19 | +#include "genUtil.h" | |
20 | +#include "mrcImage.h" | |
21 | +#include "Memory.h" | |
22 | +#include "lmrcImageAverage.h" | |
23 | +#include "lmrcImageCorrelation.h" | |
24 | + | |
25 | +/* | |
26 | +Example: | |
27 | +typedef struct lmrcImageAutoRotationAverageInfo { | |
28 | + float a; | |
29 | + int b; | |
30 | +} lmrcImageAutoRotationAverageInfo; | |
31 | + | |
32 | +typedef enum lmrcImageAutoRotationAverageMode { | |
33 | + a=0, | |
34 | + b=1 | |
35 | +} lmrcImageAutoRotationAverageMode; | |
36 | +*/ | |
37 | + | |
38 | +int | |
39 | +main(int argc, char* argv[]) | |
40 | +{ | |
41 | + mrcImage* in; | |
42 | + mrcImage ref; | |
43 | + mrcImage* fit; | |
44 | + mrcImage* cor; | |
45 | + mrcImage out; | |
46 | + mrcImageAutoRotationAverageInfo info; | |
47 | + lmrcImageAutoRotationCorrelationInfo* linfo; | |
48 | + int i, k; | |
49 | + | |
50 | + init0(&info); | |
51 | + argCheck(&info, argc, argv); | |
52 | + init1(&info); | |
53 | + | |
54 | + DEBUGPRINT("Program Start\n"); | |
55 | + in = (mrcImage*)memoryAllocate(sizeof(mrcImage)*info.flagIn, "in main"); | |
56 | + fit = (mrcImage*)memoryAllocate(sizeof(mrcImage)*info.flagIn, "in main"); | |
57 | + cor = (mrcImage*)memoryAllocate(sizeof(mrcImage)*info.flagIn, "in main"); | |
58 | + linfo = (lmrcImageAutoRotationCorrelationInfo*)memoryAllocate(sizeof(lmrcImageAutoRotationCorrelationInfo)*info.flagIn, "in main"); | |
59 | + for(i=0; i<info.flagIn; i++) { | |
60 | + mrcFileRead(&(in[i]), info.In[i], "in main", 0); | |
61 | + } | |
62 | + if(info.flagRef) { | |
63 | + mrcFileRead(&ref, info.Ref, "in main", 0); | |
64 | + } else { | |
65 | + fprintf(stderr, "FileImage(%s) is used as a reference.\n", info.In[0]); | |
66 | + mrcFileRead(&ref, info.In[0], "in main", 0); | |
67 | + } | |
68 | + | |
69 | + // linfo | |
70 | + for(i=0; i<info.flagIn; i++) { | |
71 | + linfo[i].iter = info.iter; | |
72 | + linfo[i].nRot = (int)((info.Max - info.Min)/info.Delta)+1; | |
73 | + linfo[i].Method = info.Method; | |
74 | + linfo[i].flagRestrictionArea = 1; | |
75 | + linfo[i].thetaMin = info.Min*RADIAN; | |
76 | + linfo[i].thetaMax = info.Max*RADIAN; | |
77 | + } | |
78 | + | |
79 | + for(k=0; k<info.maxIter; k++) { | |
80 | + for(i=0; i<info.flagIn; i++) { | |
81 | + DEBUGPRINT2("%d: %d\n", k, i); | |
82 | + lmrcImageAutoRotationCorrelation(&(fit[i]), &(cor[i]), &(in[i]), &ref, &(linfo[i]), info.CorMode); | |
83 | + } | |
84 | + } | |
85 | + | |
86 | + lmrcImageAverage(&out, fit, info.flagIn, info.mode); | |
87 | + | |
88 | + mrcFileWrite(&out, info.Out, "in main", 0); | |
89 | + | |
90 | + for(i=0; i<info.flagIn; i++) { | |
91 | + fprintf(info.fptLog, "%d %f %f %f %f\n", i, linfo[i].max, linfo[i].maxTheta*DEGREE, linfo[i].maxP.x, linfo[i].maxP.y); | |
92 | + } | |
93 | + exit(EXIT_SUCCESS); | |
94 | +} | |
95 | + | |
96 | +void | |
97 | +additionalUsage() | |
98 | +{ | |
99 | + fprintf(stderr, "----- Additional Usage -----\n"); | |
100 | + fprintf(stderr, "----- -Mode -----\n"); | |
101 | + lmrcImageCorrelationModePrint(stderr); | |
102 | + | |
103 | +} |
@@ -0,0 +1,40 @@ | ||
1 | +<HTML> | |
2 | +<HEAD> | |
3 | +<TITLE>mrcImageAutoRotationAverage</TITLE> | |
4 | +</HEAD> | |
5 | +<BODY> | |
6 | +<H1>mrcImageAutoRotationAverage</H1> | |
7 | +<H2>Usage</H2> | |
8 | +<PRE> | |
9 | +Usage: mrcImageAutoRotationAverage | |
10 | +Options: | |
11 | + [-i[nput] In (stdin ).as(inFileList::mrcImage) ] :Essential :Input: Ins | |
12 | + [-r[eferenc] Ref (NULL ).as(inFile::mrcImage ) ] :Optional :Input: Ref | |
13 | + [-o[utput] Out (NULL ).as(outFile::mrcImage ) ] :Essential :Output:Average | |
14 | + [-range Min (0.0 ).as(Real ) | |
15 | + Max (360.0 ).as(Real ) | |
16 | + Delta (5.0 ).as(Real ) | |
17 | + Iter (2 ).as(Integer ) ] :Optional :Mode | |
18 | + [-iter iter (2 ).as(Integer ) ] :Optional :iteration for rotation | |
19 | + [-M[odeCorrelation] CorMode (16 ).as(Integer ) ] :Optional :Mode: Correlation | |
20 | + [-Method[Correlation]Method (0 ).as(Integer ) ] :Optional :Method: Correlation | |
21 | + [-Periodic ] :Optional :Periodic | |
22 | + [-maxIter[aration] maxIter (10 ).as(Integer ) ] :Optional :MaxIteration | |
23 | + [-rmsd rmsd (1e-2 ).as(Real ) ] :Optional :rmsd | |
24 | + [-log Log (stdout ).as(inFile::ASCII ) ] :Optional :logFile | |
25 | + [-c[onfig] configFile (NULL ).as(inFile ) ] :Optional :ConfigurationFile | |
26 | + [-m[ode] mode (0 ).as(Integer ) ] :Optional :Mode | |
27 | +----- Additional Usage ----- | |
28 | +----- -Mode ----- | |
29 | +0: Normal Correlation FxG* | |
30 | +1: Phase Correlation FxG*/ |FxG*| | |
31 | +2: Phase Correlation FxG*/sqrt(|FxG*|) | |
32 | +3: Normalized Normal Correlation FxG*/|F||G|) | |
33 | +16: (0,0) = 0 | |
34 | +Refinement Correlation Map | |
35 | +0: sqrt(Sum |Fi-Gi|^2 / Sum |Gi|^2) | |
36 | +1: Sum |Gi||phaseFi - phaseGi| / Sum |Gi| | |
37 | +2: sqrt(Sum |Gi||phaseFi - phaseGi|^2 / Sum |Gi| ) | |
38 | +</PRE> | |
39 | +</BODY> | |
40 | +</HTML> |
@@ -0,0 +1,25 @@ | ||
1 | +-F 4.3 1 0 52x1+0+0 +0+0 'Cantata' cantata | |
2 | + -M 1 1 52x1+0+0 +1+0 ' ' subform | |
3 | + -P 1 0 52x1+0+1 +0+0 ' ' mrcImageAutoRotationAverage | |
4 | + -D 1 0 9x1+0+0 'Options' _gui_options | |
5 | + -H 1 6x1+0+0 'License' 'license' $BOOTSTRAP/repos/license/License license | |
6 | + -E | |
7 | + -R 1 0 1 5x1+35+0 'Run' 'execute operation' $EOS/bin/mrcImageAutoRotationAverage | |
8 | + -H 1 5x1+41+0 'Help' 'help page' $EOS/src/Tools/mrcImage/mrcImageAutoRotationAverage/doc/mrcImageAutoRotationAverage.doc help | |
9 | + -Q 1 0 5.25x1+47+0 'Close' | |
10 | + -I 1 0 1 1 0 1 -1x1+1+1.500000 ' ' 'In' 'Input: Ins' i | |
11 | + -I 1 0 1 0 0 1 -1x1+1+3.000000 ' ' 'Ref' 'Input: Ref' r | |
12 | + -O 1 0 1 1 0 1 -1x1+1+4.500000 ' ' 'Out' 'Output:Average' o | |
13 | + -I 1 0 0 1 0 1 -1x1+1+6 ' ' '0.0' 'Min' Mode | |
14 | + -i 1 0 1 0 0 -1x1+1+7.500000 0 0 2 0 0 'iter' 'iteration for rotation' iter | |
15 | + -i 1 0 1 0 0 -1x1+1+9.000000 0 0 16 0 0 'CorMode' 'Mode: Correlation' M | |
16 | + -i 1 0 1 0 0 -1x1+1+10.500000 0 0 0 0 0 'Method' 'Method: Correlation' Method | |
17 | + -t 1 0 1 0 0 6x1+1+12 'Periodic' 'Periodic' Periodic | |
18 | + -i 1 0 1 0 0 -1x1+1+13.500000 0 0 10 0 0 'maxIter' 'MaxIteration' maxIter | |
19 | + -f 1 0 1 0 0 -1x1+1+15.000000 0 0 0.010000 0 0 0 'rmsd' 'rmsd' rmsd | |
20 | + -I 1 0 1 0 0 1 -1x1+1+16.500000 ' ' 'Log' 'logFile' log | |
21 | + -I 1 0 1 0 0 1 -1x1+1+18.000000 ' ' 'configFile' 'ConfigurationFile' c | |
22 | + -i 1 0 1 0 0 -1x1+1+19.500000 0 0 0 0 0 'mode' 'Mode' m | |
23 | + -E | |
24 | + -E | |
25 | +-E |
@@ -0,0 +1,25 @@ | ||
1 | +include ../../Config/Define.inc | |
2 | +include ../../../Config/Define.inc | |
3 | +include ../../../../Config/Define.inc | |
4 | +include ../../../../../Config/Define.inc | |
5 | + | |
6 | +all: help exec | |
7 | + | |
8 | +help: | |
9 | + @echo "----- Help Message Check -----" | |
10 | + @../$(OSTYPE)/$(OBJECTNAME) -h | |
11 | + | |
12 | +exec: | |
13 | + @echo "----- Execution Check -----" | |
14 | + ../$(OSTYPE)/$(OBJECTNAME) -i data/in.lst -r data/test-000.mrc -o data/test.avg -Periodic -range 0 360 5 -M 18 -m 0 -maxIter 10 -iter 4; | |
15 | + @echo "----- Calc check -----" | |
16 | + | |
17 | +init: | |
18 | + pdb2mrc2d -i data/121p-GC.pdb -o data/test-000.mrc -d 2.5 2.5 -s -40 -40 -n 32 32 -sig 2.0 -w 1.0 | |
19 | + echo "data/test-000.mrc" > data/in.lst | |
20 | + for i in 030 060 090 120 150 180 ; do \ | |
21 | + mrcImageRotation -i data/test-000.mrc -o data/test-$$i.mrc -a $$i -Periodic; \ | |
22 | + echo "data/test-$$i.mrc" >> data/in.lst; \ | |
23 | + done | |
24 | + | |
25 | +clean: |
@@ -0,0 +1 @@ | ||
1 | +../../../../../..//data/mrcImageAutoRotationAverage | |
\ No newline at end of file |
@@ -0,0 +1,45 @@ | ||
1 | +#include <stdio.h> | |
2 | +#include <stdlib.h> | |
3 | +#include "../inc/config.h" | |
4 | + | |
5 | +void | |
6 | +usage(char* thisProgram) | |
7 | +{ | |
8 | + fprintf(stderr, "Usage: %s\n", thisProgram); | |
9 | + fprintf(stderr, "Options:\n"); | |
10 | + fprintf(stderr, " [-i[nput] In (stdin ).as(inFileList::mrcImage) ] :Essential :Input: Ins\n"); | |
11 | + fprintf(stderr, " [-r[eferenc] Ref (NULL ).as(inFile::mrcImage ) ] :Optional :Input: Ref\n"); | |
12 | + fprintf(stderr, " [-o[utput] Out (NULL ).as(outFile::mrcImage ) ] :Essential :Output:Average\n"); | |
13 | + fprintf(stderr, " [-range Min (0.0 ).as(Real ) \n Max (360.0 ).as(Real ) \n Delta (5.0 ).as(Real ) \n Iter (2 ).as(Integer ) ] :Optional :Mode\n"); | |
14 | + fprintf(stderr, " [-iter iter (2 ).as(Integer ) ] :Optional :iteration for rotation\n"); | |
15 | + fprintf(stderr, " [-M[odeCorrelation] CorMode (16 ).as(Integer ) ] :Optional :Mode: Correlation\n"); | |
16 | + fprintf(stderr, " [-Method[Correlation]Method (0 ).as(Integer ) ] :Optional :Method: Correlation\n"); | |
17 | + fprintf(stderr, " [-Periodic ] :Optional :Periodic\n"); | |
18 | + fprintf(stderr, " [-maxIter[aration] maxIter (10 ).as(Integer ) ] :Optional :MaxIteration\n"); | |
19 | + fprintf(stderr, " [-rmsd rmsd (1e-2 ).as(Real ) ] :Optional :rmsd\n"); | |
20 | + fprintf(stderr, " [-log Log (stdout ).as(inFile::ASCII ) ] :Optional :logFile\n"); | |
21 | + fprintf(stderr, " [-c[onfig] configFile (NULL ).as(inFile ) ] :Optional :ConfigurationFile\n"); | |
22 | + fprintf(stderr, " [-m[ode] mode (0 ).as(Integer ) ] :Optional :Mode\n"); | |
23 | + additionalUsage(); | |
24 | +} | |
25 | + | |
26 | +void | |
27 | +htmlBeforeUsage(char* thisProgram) | |
28 | +{ | |
29 | + fprintf(stderr, "<HTML>\n"); | |
30 | + fprintf(stderr, "<HEAD>\n"); | |
31 | + fprintf(stderr, "<TITLE>%s</TITLE>\n", thisProgram); | |
32 | + fprintf(stderr, "</HEAD>\n"); | |
33 | + fprintf(stderr, "<BODY>\n"); | |
34 | + fprintf(stderr, "<H1>%s</H1>\n", thisProgram); | |
35 | + fprintf(stderr, "<H2>Usage</H2>\n"); | |
36 | + fprintf(stderr, "<PRE>\n"); | |
37 | +} | |
38 | + | |
39 | +void | |
40 | +htmlAfterUsage(char* thisProgram) | |
41 | +{ | |
42 | + fprintf(stderr, "</PRE>\n"); | |
43 | + fprintf(stderr, "</BODY>\n"); | |
44 | + fprintf(stderr, "</HTML>\n"); | |
45 | +} |
@@ -0,0 +1,4 @@ | ||
1 | +#include <stdio.h> | |
2 | +#include <stdlib.h> | |
3 | +#include "../inc/config.h" | |
4 | + |