OSDN Git Service
Takuo Yasunaga [Tue, 1 Jul 2014 02:57:36 +0000 (11:57 +0900)]
Bug fixed:
modified: mrcImageInfo
modified: src/Objects/DataManip/mrcImage/src/mrcImageInfo.c
Takuo Yasunaga [Sat, 28 Jun 2014 04:39:24 +0000 (13:39 +0900)]
A new command : for floating. Previously, we have used mrcImagePad for floating
new file: bin/mrcImageFloating
new file: src/Objects/DataManip/mrcImage/src/lmrcImageFloating.c
new file: src/Objects/DataManip/mrcImage/src/lmrcImageFloating.h
new file: src/Tools/mrcImage/mrcImageFloating/*
Takuo Yasunaga [Wed, 25 Jun 2014 21:48:15 +0000 (06:48 +0900)]
Bug fixed for Color Images:
modified: src/Objects/DataManip/bmpFile/src/bmpFileRead.c
modified: src/Objects/DataManip/bmpFile/src/lbmp2mrc.c
modified: src/Tools/filter/bmp2mrc/src/test/Makefile
Takuo Yasunaga [Wed, 25 Jun 2014 20:48:27 +0000 (05:48 +0900)]
Add a new function:
BMP File Format:
new file: bin/bmp2mrc
new file: bin/bmpFileInfo
new file: include/bmpFile.h
new file: src/Objects/DataManip/bmpFile/*
new file: src/Objects/DataManip/bmpFile/inc/bmpFile.h
new file: src/Objects/DataManip/bmpFile/src/bmpFileInfo.c
new file: src/Objects/DataManip/bmpFile/src/bmpFileRead.c
new file: src/Objects/DataManip/bmpFile/src/lbmp2mrc.c
new file: src/Tools/bmpFile/
new file: src/Tools/bmpFile/bmpFileInfo/*
new file: src/Tools/filter/bmp2mrc/*
Modify Makefile to see gcc commands
modified: src/Config/Template/ObjectsTemplate.Dir/src/ARCH/Makefile
modified: src/Config/x86Mac64.inc
modified: src/Objects/DataManip/Makefile
Install ruby1.9.1
new file: hostdepend/X86MAC64/util/X86MAC64/lib/ruby/1.9.1/*
new file: hostdepend/X86MAC64/util/X86MAC64/share/ri/1.9.1/*
Takuo Yasunaga [Sun, 22 Jun 2014 23:17:06 +0000 (08:17 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Takuo Yasunaga [Sun, 22 Jun 2014 23:12:21 +0000 (08:12 +0900)]
Rebuild for X86LINUX:
modified: hostdepend/X86LINUX64/bin/X86LINUX64/*
Takuo Yasunaga [Sun, 22 Jun 2014 22:28:47 +0000 (07:28 +0900)]
Bug fixed:
Takuo Yasunaga [Sun, 22 Jun 2014 22:15:25 +0000 (07:15 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Takuo Yasunaga [Sun, 22 Jun 2014 22:11:32 +0000 (07:11 +0900)]
Bug fixed:
Conflicts:
src/Objects/DataExpress/eosRuby/src/Swig/molvieRuby_wrap.c
src/Objects/DataExpress/gifFile/doc/gifFile.html
src/Objects/DataExpress/openGL/doc/openGL.html
src/Objects/DataExpress/psFile/doc/psFile.html
src/Objects/DataManip/ctfInfo/doc/ctfInfo.html
src/Objects/DataManip/llData/doc/llData.html
src/Objects/DataManip/transform/doc/transform.html
src/Objects/General/Matrix3D/doc/Matrix3D.html
src/Objects/General/Vector/doc/Vector.html
src/Tools/DCDFile/dcdAtomChangeDistanceFromAtom/src/dcdAtomChangeDistanceFromAtom.html
src/Tools/DCDFile/dcdAtomDistanceDistribution/src/dcdAtomDistanceDistribution.html
src/Tools/DCDFile/dcdFilePrint/src/dcdFilePrint.html
src/Tools/DCDFile/dcdInfo/src/dcdInfo.html
src/Tools/DCDFile/dcdSelectAtoms/src/dcdSelectAtoms.html
src/Tools/DCDFile/dcdSerectAtom/src/dcdSerectAtom.html
src/Tools/DCDFile/dcdTimeSeriesBehavior/src/dcdTimeSeriesBehavior.html
src/Tools/Integration/Display2/src/Display2.html
src/Tools/Integration/StereoDisplay/src/StereoDisplay.html
src/Tools/database/homology2PG/src/homology2PG.html
src/Tools/database/pgJournalSelect/src/pgJournalSelect.html
src/Tools/database/pgSelect/src/pgSelect.html
src/Tools/mrcImage/mrc2hdf/src/ALPHA
src/Tools/mrcImage/mrc2hdf/src/ALPHALINUX
src/Tools/mrcImage/mrc2hdf/src/ALPHALINUX5
src/Tools/mrcImage/mrc2hdf/src/ALPHAOSF1
src/Tools/mrcImage/mrc2hdf/src/HP
src/Tools/mrcImage/mrc2hdf/src/I386LINUX
src/Tools/mrcImage/mrc2hdf/src/SGI
src/Tools/mrcImage/mrcImageDensityInfo/src/mrcImageDensityInfo.html
src/Tools/mrcImage/mrcImageSphereCheck/src/mrcImageSphereCheck.html
src/Tools/mrcImage/mrcImageSplit/src/mrcImageSplit.html
src/Tools/mrcImage/mrcImageSuperResolution/src/mrcImageSuperResolution.html
src/Tools/mrcImage/mrcImageVolumeCalc/src/mrcImageVolumeCalc.html
src/Tools/mrcImage/mrcImageWindowing/src/mrcImageWindowing.html
src/Tools/mrcImage/mrcSinogramFETsmoothParameterMatching/src/mrcSinogramFETsmoothParameterMatching.html
src/Tools/pdbUtil/pdb2mrc2d/src/pdb2mrc2d.html
src/Tools/pdbUtil/pdbChargeFit/src/pdbChargeFit.html
src/Tools/pdbUtil/pdbCrystalCreate/src/pdbCrystalCreate.html
src/Tools/pdbUtil/pdbHelix/src/pdbHelix.html
src/Tools/pdbUtil/pdbMove/src/pdbMove.html
src/Tools/pdbUtil/pdbPCA/src/pdbPCA.html
src/Tools/pdbUtil/pdbRhoFit/src/pdbRhoFit.html
src/Tools/pdbUtil/pdbRhoFitTm/src/pdbRhoFitTm.html
src/Tools/pdbUtil/pdbShapeFit/src/pdbShapeFit.html
src/Tools/pdbUtil/pdbTrans/src/pdbTrans.html
src/Tools/pdbUtil/pdbTwoProteinFit/src/pdbTwoProteinFit.html
src/Tools/rec3d/commonLinesSearchByVoting/src/commonLinesSearchByVoting.html
Takuo Yasunaga [Sun, 22 Jun 2014 15:06:06 +0000 (00:06 +0900)]
rebuild: for X86LINUX64/X86LINUX64ICC
modified: hostdepend/X86LINUX64/bin/X86LINUX64/*
modified: hostdepend/X86LINUX64ICC/bin/X86LINUX64ICC/*
Takuo Yasunaga [Sun, 22 Jun 2014 15:03:48 +0000 (00:03 +0900)]
Create a new command for edge enhancement before edge detection
new file: mrcImageEdgeEnhancement
modified: lmrcImageEdgeEnhancement.h
modified: src/Objects/DataManip/mrcImage/src/lmrcImageEdgeEnhancement.c
modified: src/Objects/DataManip/mrcImage/src/lmrcImageEdgeEnhancement.h
new file: src/Objects/DataManip/mrcImage/src/lmrcImagePrevitt.c
new file: src/Objects/DataManip/mrcImage/src/lmrcImageRoberts.c
new file: src/Objects/DataManip/mrcImage/src/lmrcImageSobel.c
modified: src/Tools/Config/Define.inc
modified: src/Tools/mrcImage/mrcImageEdgeEnhancement/*
Takuo Yasunaga [Sat, 21 Jun 2014 11:32:18 +0000 (20:32 +0900)]
CUDA_OPTS:
modified: env/Eos_env
modified: src/Config/x86Linux64.inc
modified: src/Config/x86Linux64icc.inc
modified: src/Config/x86Mac64.inc
Takuo Yasunaga [Sat, 21 Jun 2014 09:18:51 +0000 (18:18 +0900)]
Create a new command:
new file: bin/mrcImageDividedByFile
new file: hostdepend/X86MAC64/bin/X86MAC64/mrcImageDividedByFile
Bug fixed: Devided -> Divided : Spell-missing
modified: include/mrcImage.h
modified: src/Objects/DataManip/mrcImage/inc/mrcImage.h
modified: src/Objects/DataManip/mrcImage/src/lmrcImageAverage.c
modified: src/Objects/DataManip/mrcImage/src/lmrcImageMontageCreate.c
modified: src/Objects/DataManip/mrcImage/src/mrcImageOperation.c
modified: src/Tools/Config/Define.inc
new file: src/Tools/mrcImage/mrcImageDividedByFile/*
Takuo Yasunaga [Sat, 21 Jun 2014 07:11:26 +0000 (16:11 +0900)]
Create A new tool:
new file: bin/mrcImageLogicalOperation
new file: hostdepend/X86MAC64/bin/X86MAC64/mrcImageLogicalOperation
new file: lmrcImageLogic.h
new file: lmrcImageLogicalOperation.c
modified: src/Tools/Config/Define.inc
new file: src/Tools/mrcImage/mrcImageLogicalOperation/*
Config/Define.inc
Takuo Yasunaga [Sat, 21 Jun 2014 04:06:21 +0000 (13:06 +0900)]
Create New Tools:
new file: mrcImageBottomHatTransform
new file: mrcImageTopHatTransform
new file: include/lmrcImageEdgeEnhancement.h
new file: src/Objects/DataManip/mrcImage/src/lmrcImageBottomHatTransform.c
new file: src/Objects/DataManip/mrcImage/src/lmrcImageTopHatTransform.c
modified: src/Objects/DataManip/mrcImage/src/lmrcImageMorphology.h
modified: src/Tools/Config/Define.inc
modified: src/Tools/Makefile
Under construction
modified: include/lmrcImageMorphology.h
new file: src/Tools/mrcImage/mrcImageEdgeEnhancement/*
Takuo Yasunaga [Fri, 20 Jun 2014 22:39:23 +0000 (07:39 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Takuo Yasunaga [Fri, 20 Jun 2014 22:37:54 +0000 (07:37 +0900)]
Under construction.
modified: hostdepend/X86MAC64/src/Tools/rec3d/marker2Dto3DEstimator/src/X86MAC64/marker2Dto3DEstimator
modified: src/Tools/rec3d/marker2Dto3DEstimator/Config/OptionControlFile
modified: src/Tools/rec3d/marker2Dto3DEstimator/src/marker2Dto3DEstimator.c
Takuo Yasunaga [Sun, 15 Jun 2014 18:50:00 +0000 (03:50 +0900)]
rebuild
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Conflicts:
src/Objects/DataExpress/eosRuby/src/Swig/molvieRuby_wrap.c
src/Tools/Config/Define.inc
src/Tools/Integration/Display2/src/Display2.html
src/Tools/mrcImage/mrc2hdf/src/ALPHA
src/Tools/mrcImage/mrc2hdf/src/ALPHALINUX
src/Tools/mrcImage/mrc2hdf/src/ALPHALINUX5
src/Tools/mrcImage/mrc2hdf/src/ALPHAOSF1
src/Tools/mrcImage/mrc2hdf/src/HP
src/Tools/mrcImage/mrc2hdf/src/I386LINUX
src/Tools/mrcImage/mrc2hdf/src/SGI
src/Tools/mrcImage/mrcImageDensityInfo/src/mrcImageDensityInfo.html
src/Tools/mrcImage/mrcImageSplit/src/mrcImageSplit.html
new file: bin/mrcImageAsProbability
new file: bin/mrcImageDeconvolution
new file: hostdepend/I386LINUX/bin/I386LINUX/StereoDisplay
modified: hostdepend/I386LINUX/lib/I386LINUX/*
modified: hostdepend/X86LINUX64/bin/X86LINUX64/*
Takuo Yasunaga [Sun, 15 Jun 2014 16:34:19 +0000 (01:34 +0900)]
Rebuild
modified: hostdepend/I386LINUX/bin/I386LINUX/*
Takuo Yasunaga [Sun, 15 Jun 2014 16:26:57 +0000 (01:26 +0900)]
Modify Eos_env for no CUDA
modified: env/Eos_env
Rebuild
modified: hostdepend/I386LINUX/bin/I386LINUX/*
modified: hostdepend/I386LINUX/lib/I386LINUX/*
modified: hostdepend/I386LINUX/lib/I386LINUX/shared/*
modified: hostdepend/I386LINUX/src/Objects/*
copied: hostdepend/I386LINUX/lib/I386LINUX/*
Modify the belows for no CUDA
modified: src/Config/i386Linux.inc
modified: src/Objects/DataManip/mrcImage/src/lmrcImageAddValue.c
modified: src/Objects/DataManip/mrcImage/src/lmrcImageFFT.c
modified: src/Objects/DataManip/pdbFile/src/pdbTrans.c
modified: src/Objects/General/eosCuda/src/eosCuda.cu
modified: src/Tools/Config/Define.inc
typechange: src/Tools/Makefile
modified: src/Tools/mrcImage/mrcImageAddValue/Config/Define.inc
modified: src/Tools/mrcImage/mrcImageAddValue/src/mrcImageAddValue.c
typechange: src/Tools/pdbUtil/Makefile
modified: src/Tools/pdbUtil/pdbTrans/*
Takuo Yasunaga [Sun, 15 Jun 2014 07:10:07 +0000 (16:10 +0900)]
Bug fixed:
modified: Makefile
Add rebuild-src to modify src/Objects/Makefile and src/Tools/Makefile
new file: bin/marker2Dto3DEstimator
Rebuild:
modified: hostdepend/I386LINUX/bin/I386LINUX/*
modified: hostdepend/I386LINUX/*
Takuo Yasunaga [Wed, 11 Jun 2014 04:33:47 +0000 (13:33 +0900)]
New tools
new file: bin/mrcImageAsProbability
new file: bin/mrcImageDeconvolution
new file: bin/marker2Dto3DEstimator
Takuo Yasunaga [Wed, 4 Jun 2014 10:16:48 +0000 (19:16 +0900)]
Bug fixed:
modified: src/Objects/DataManip/transform/src/lmrc2Dto3D.c
Takuo Yasunaga [Sun, 1 Jun 2014 06:42:05 +0000 (15:42 +0900)]
lmrc2Dto3d: Weighted Back-projection
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Takuo Yasunaga [Sun, 1 Jun 2014 06:38:42 +0000 (15:38 +0900)]
Add weighted Back-projection lmrc2Dto3D: -m 2
modified: src/Objects/DataManip/transform/src/lmrc2Dto3D.c
modified: src/Tools/rec3d/marker2Dto3DEstimator/src/marker2Dto3DEstimator.c
modified: src/Tools/rec3d/mrc2Dto3D/src/mrc2Dto3D.c
Eos [Sat, 31 May 2014 22:29:14 +0000 (07:29 +0900)]
Bug fixed: git-clone
modified: Makefile
Takuo Yasunaga [Fri, 30 May 2014 02:59:29 +0000 (11:59 +0900)]
Bug fixed:
modified: src/Tools/rec3d/mrcImageInverseRadonTransform/src/mrcImageInverseRadonTransform.c
Under construction:
modified: src/Tools/rec3d/marker2Dto3DEstimator/src/marker2Dto3DEstimator.c
Takuo Yasunaga [Tue, 27 May 2014 09:04:44 +0000 (18:04 +0900)]
modified: env/Eos_env
for $CUDA_ROOT/lib
Takuo Yasunaga [Tue, 27 May 2014 07:54:39 +0000 (16:54 +0900)]
modified: env/Eos_env
for OS-X 10.9 and 10.8 System Call Change
Takuo Yasunaga [Mon, 26 May 2014 18:38:46 +0000 (03:38 +0900)]
Bug fixed:
modified: hostdepend/X86MAC64/bin/X86MAC64/mrcImagePad
modified: hostdepend/X86MAC64/lib/X86MAC64/shared/lmrcImageFFT.sharedo
modified: hostdepend/X86MAC64/lib/X86MAC64/shared/lmrcImageTriming.sharedo
new file: hostdepend/X86MAC64/util/X86MAC64/cuda
modified: src/Objects/DataManip/mrcImage/src/lmrcImageTriming.c
Takuo Yasunaga [Mon, 26 May 2014 17:46:56 +0000 (02:46 +0900)]
modified: env/Eos_env
modify util/HOSTDIR/bin
modified: include/Matrix3D.h
modified: include/eosPoint.h
modified: include/genUtil.h
modified: include/lmrcImageMasking.h
modified: src/Objects/General/Matrix3D/inc/Matrix3D.h
modified: src/Objects/General/Memory/inc/Memory.h
modified: src/Objects/General/Memory/src/memoryAllocate.c
modified: src/Objects/General/Memory/src/memoryByteSwap.c
new file: src/Objects/General/eosFunc/*
Add a new object of eosFunc: Sync/Rect
modified: src/Objects/General/eosPoint/*
Add eosPoint for maker
new file: bin/eosPointRotation
new file: src/Tools/rec3d/marker2Dto3DEstimator/*
Not yet completed
Takuo Yasunaga [Fri, 23 May 2014 22:41:19 +0000 (07:41 +0900)]
modified: src/Objects/DataManip/mrcImage/src/lmrcImageMasking.h
modified: src/Tools/mrcImage/mrcImageMasking/src/mrcImageMasking.c
Takuo Yasunaga [Fri, 23 May 2014 22:26:34 +0000 (07:26 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Conflicts:
bin/wish/Display2/tclIndex
modified: env/Eos_env
modified: hostdepend/X86MAC64/*
modified: src/Config/x86Mac64.inc
Takuo Yasunaga [Fri, 23 May 2014 21:59:50 +0000 (06:59 +0900)]
new file: Integration/Averaging2D/*
new file: include/eosFunc.h
modified: include/lmrc2Dto3D.h
modified: include/lmrcImageRhoFiltering.h
Add RhoFiltering Mode
modified: src/Objects/DataManip/mrcImage/src/lmrcImageRhoFiltering.c
modified: src/Objects/DataManip/mrcImage/src/lmrcImageRhoFiltering.h
modified: src/Objects/DataManip/transform/src/lmrc2Dto3D.c
modified: src/Objects/DataManip/transform/src/lmrc2Dto3D.h
Add New Objects, eosFunc : sinc, rect
new file: src/Objects/General/eosFunc/*
modified: src/Tools/Config/Define.inc
typechange: src/Tools/Makefile
Add RhoFiltering
modified: src/Tools/rec3d/mrc2Dto3D/Config/OptionControlFile
typechange: src/Tools/rec3d/mrc2Dto3D/Makefile
modified: src/Tools/rec3d/mrc2Dto3D/inc/mrc2Dto3D.h
Takuo Yasunaga [Sun, 18 May 2014 12:13:45 +0000 (21:13 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Takuo Yasunaga [Sun, 18 May 2014 12:04:15 +0000 (21:04 +0900)]
modified: hostdepend/X86MAC64/*
modified: include/lmrc2Dto3D.h
modified: src/Config/x86Mac64.inc
modified: src/Objects/DataExpress/eosRuby/src/Swig/mkmf.log
modified: src/Objects/DataExpress/eosRuby/src/Swig/molvieRuby_wrap.c
modified: src/Objects/General/eosCuda/src/eosCuda.cu
modified: src/*/*/*/src/Makefile
Takuo Yasunaga [Tue, 13 May 2014 05:14:43 +0000 (14:14 +0900)]
modified: src/Tools/rec3d/mrcImageOrientationSearch/src/mrcImageOrientationSearch.c
Takuo Yasunaga [Mon, 12 May 2014 21:38:26 +0000 (06:38 +0900)]
modified: mrcImageTfunction
modified: src/Objects/DataManip/mrcImage/src/lmrcImageTfunction.c
Takuo Yasunaga [Mon, 12 May 2014 00:43:40 +0000 (09:43 +0900)]
Conflicts:
Makefile
Takuo Yasunaga [Sun, 11 May 2014 22:36:46 +0000 (07:36 +0900)]
modified: hostdepend/X86MAC64/bin/X86MAC64/tiff2mrc
modified: hostdepend/X86MAC64/src/Tools/filter/tiff2mrc/src/X86MAC64/tiff2mrc
modified: src/Config/x86Mac64.inc
deleted: src/Objects/General/eosCuda/src/eosCuda.c
Takuo Yasunaga [Sun, 11 May 2014 22:22:59 +0000 (07:22 +0900)]
new file: Integration/Tomography/Makefile.recent
modified: Makefile
modified: hostdepend/X86MAC64/bin/X86MAC64/mrc2tiff
modified: hostdepend/X86MAC64/bin/X86MAC64/mrc2gif
modified: hostdepend/X86MAC64/src/Tools/rec3d/mrc2Dto3D/src/X86MAC64/mrc2Dto3D
added: libtiff, libgif
added: cuda
modified: include/eosPThread.h
modified: src/Config/x86Mac64.inc
modified: src/Objects/General/eosPThread/src/eosPThreadInit.c
modified: src/Objects/General/eosPThread/src/eosPThreadMutex.c
modified: src/Tools/rec3d/mrc2Dto3D/Config/Define.inc
new file: util/srcX86MAC64
Takuo Yasunaga [Sun, 11 May 2014 14:03:33 +0000 (23:03 +0900)]
Bug fixed:
modified: Makefile
bug fixed: mrcImageClusterAnalysis
bug fixed: pdbChargeFit
Takuo Yasunaga [Thu, 1 May 2014 04:59:37 +0000 (13:59 +0900)]
values.h
modified: src/Tools/mrcImage/mrcImageClusterAnalysis/src/mrcImageClusterAnalysis.c
Takuo Yasunaga [Thu, 1 May 2014 03:07:22 +0000 (12:07 +0900)]
Remake for make rebuild
modified: src/Tools/mrcImage/mrcImageInfo/src/Makefile
Takuo Yasunaga [Wed, 30 Apr 2014 18:11:07 +0000 (03:11 +0900)]
values.h
mrcImageOrientationSearchBySimultaneousMinimization
mrcImageClusterAnalysis
Takuo Yasunaga [Wed, 30 Apr 2014 10:35:28 +0000 (19:35 +0900)]
Bug fixed: Compile error on OS-X : mrcImageClusterAnalysis
modified: src/Objects/General/Cluster/src/clusterLogRead.c
Takuo Yasunaga [Tue, 29 Apr 2014 20:01:33 +0000 (05:01 +0900)]
Add others2
modified: Makefile
Change a tool install method, i.e., When we cannot rebuild some tools, we do not install them.
modified: src/Config/Template/ToolsTemplate.Dir/src/Makefile
Chnage eosCuda.c to eosCuda.cu
deleted: hostdepend/X86LINUX64ICC/src/Objects/General/eosCuda/src/X86LINUX64ICC/eosCuda.c
Takuo Yasunaga [Tue, 29 Apr 2014 08:42:26 +0000 (17:42 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Takuo Yasunaga [Mon, 28 Apr 2014 23:31:28 +0000 (08:31 +0900)]
deleted: "\177"
deleted: "\177\177"
Takuo Yasunaga [Mon, 28 Apr 2014 23:26:26 +0000 (08:26 +0900)]
>> Change Makefile for rebuilding
modified: src/Makefile
modified: src/Tools/Config/Define.inc
typechange: src/Tools/Makefile
>> Change mrcImageFFT
modified: src/Tools/mrcImage/mrcImageFFT/Config/Define.inc
modified: src/Objects/DataManip/mrcImage/src/lmrcImageFFT.c
Takuo Yasunaga [Fri, 25 Apr 2014 18:49:01 +0000 (03:49 +0900)]
modified: include/genUtil.h
modified: include/lmrcImageAddValue.h
modified: include/pdbFile.h
modified: src/Objects/DataManip/mrcImage/src/lmrcImageAddValue.c
modified: src/Objects/DataManip/pdbFile/src/pdbTrans.c
modified: src/Objects/DataManip/pdbFile/src/pdbTransCuda.cu
modified: src/Objects/General/genUtil/inc/genUtil.h
Takuo Yasunaga [Wed, 23 Apr 2014 13:43:12 +0000 (22:43 +0900)]
Install Cuda
new file: hostdepend/X86LINUX64/util/X86LINUX64/cuda
Install ICC
new file: hostdepend/X86LINUX64ICC/include/*.h
modified: hostdepend/X86LINUX64ICC/lib/X86LINUX64ICC/libEosObjects.a
Modify eosCuda
modified: include/eosCuda.h
modified: src/Objects/General/eosCuda/Config/Define.inc
modified: src/Objects/General/eosCuda/inc/eosCuda.h
new file: src/Objects/General/eosCuda/src/eosCuda.cu
Modify Configuration Files for ICC and CUDA
modified: include/pdbFile.h
modified: src/Config/DefineObject.inc
modified: src/Config/Template/ObjectsTemplate.Dir/src/ARCH/Makefile
modified: src/Config/x86Linux64icc.inc
modified: src/Objects/DataManip/Config/Define.inc
modified: src/Tools/Config/Define.inc
Examples for CUDA Applications:
modified: src/Tools/mrcImage/mrcImageAddValue/*
modified: src/Tools/pdbUtil/pdbRotation/*
modified: src/Objects/DataManip/pdbFile/src/pdbTrans.c
new file: src/Objects/DataManip/pdbFile/src/pdbTransCuda.cu
Takuo Yasunaga [Fri, 18 Apr 2014 19:54:28 +0000 (04:54 +0900)]
We expanded a format of OptionControlFile and added the attribultes of option types
Ex. inFile ->> inFile::mrcImage or inFile::ASCII
new file: sbin/awk/ctrl2Function.awk
modified: sbin/awk/ctrl2argCheck.awk
modified: sbin/awk/ctrl2configFileRead.awk
modified: sbin/awk/ctrl2configFileUsage.awk
modified: sbin/awk/ctrl2controlFile.awk
modified: sbin/awk/ctrl2header.awk
modified: sbin/awk/ctrl2init0.awk
modified: sbin/awk/ctrl2init1.awk
modified: sbin/awk/ctrl2khorospane.awk
modified: sbin/awk/ctrl2usage.awk
modified: sbin/awk/ctrlShow.awk
modified: sbin/ctrl2argCheck
modified: sbin/ctrl2configFileRead
modified: sbin/ctrl2header
modified: sbin/ctrl2init
modified: sbin/ctrl2usage
modified: sbin/ctrl2util
Modifiid Tools by new OptionControlFile
modified: hostdepend/X86LINUX64/bin/X86LINUX64/mrcImageInfo
modified: hostdepend/X86LINUX64/bin/X86LINUX64/llExtract
modified: hostdepend/X86LINUX64/bin/X86LINUX64/mrcImageROI
modified: hostdepend/X86LINUX64/bin/X86LINUX64/mrcInfo
Takuo Yasunaga [Mon, 24 Mar 2014 23:07:35 +0000 (08:07 +0900)]
modified: mrcSinogramFETcalcSDforNormalize
Takuo Yasunaga [Mon, 24 Mar 2014 22:17:21 +0000 (07:17 +0900)]
deleted: some files
Takuo Yasunaga [Mon, 24 Mar 2014 22:12:00 +0000 (07:12 +0900)]
modified: mrcMeanYlinePos
Takuo Yasunaga [Mon, 24 Mar 2014 21:39:29 +0000 (06:39 +0900)]
deleted: Some files
Takuo Yasunaga [Mon, 24 Mar 2014 21:36:25 +0000 (06:36 +0900)]
modified: mrcImage1dShiftByCorrelation
Takuo Yasunaga [Mon, 24 Mar 2014 21:03:42 +0000 (06:03 +0900)]
deleted: some files
Takuo Yasunaga [Mon, 24 Mar 2014 20:54:23 +0000 (05:54 +0900)]
modified: src/Objects/DataManip/emData/src/emDataRead.c
modified: src/Tools/filter/emData2mrc/src/emData2mrc
Takuo Yasunaga [Sun, 23 Mar 2014 20:19:08 +0000 (05:19 +0900)]
mv: src/Tools/Test/angleMatchTest_k -> src/Tools/utils
mv: src/Tools/Test/angleMatchTest_k/src/util.c -> src/Tools/utils
Takuo Yasunaga [Sun, 23 Mar 2014 20:10:16 +0000 (05:10 +0900)]
modified: angleMatchTest_k
modified: anglediffchk
Takuo Yasunaga [Sun, 23 Mar 2014 00:55:11 +0000 (09:55 +0900)]
modified: mrc2fld
modified: llDataResolutionCheck.c
Takuo Yasunaga [Sun, 23 Mar 2014 00:33:59 +0000 (09:33 +0900)]
Ticket
modified: mrcImageCoreImageCalc
modified: pdbChargeFit
Takuo Yasunaga [Thu, 20 Mar 2014 22:19:30 +0000 (07:19 +0900)]
modified: mrcImageMultiCTFDetermination
Takuo Yasunaga [Thu, 20 Mar 2014 13:02:54 +0000 (22:02 +0900)]
modified: ctfMultiFunction
Takuo Yasunaga [Thu, 20 Mar 2014 12:54:23 +0000 (21:54 +0900)]
modified: src/Tools/mrcImage/mrcImageFOMCalc/src/mrcImageFOMCalc.c
deleted: src/Tools/mrcImage/mrcImageAverage/src/.mrcImageAverage.c.swp
Takuo Yasunaga [Thu, 20 Mar 2014 12:30:25 +0000 (21:30 +0900)]
modified: pdbListRMSDCalc.c
Takuo Yasunaga [Thu, 20 Mar 2014 11:34:39 +0000 (20:34 +0900)]
modified: mrcImageFractalFourierShellCorrelation.c
modified: pdbListRMSDCalc.c
Takuo Yasunaga [Fri, 7 Mar 2014 01:54:57 +0000 (10:54 +0900)]
Bug fixed: Spell miss
modified: hostdepend/X86LINUX64/bin/X86LINUX64/mrcImageAutoFilamentExtract
modified: hostdepend/X86LINUX64/src/Tools/mrcImage/mrcImageAutoFilamentExtract/src/X86LINUX64/mrcImageAutoFilamentExtract
modified: src/Tools/mrcImage/mrcImageAutoFilamentExtract/src/mrcImageAutoFilamentExtract.c
Takuo Yasunaga [Fri, 7 Mar 2014 00:43:03 +0000 (09:43 +0900)]
modified: hostdepend/X86LINUX64/bin/X86LINUX64/mrcImageAutoFilamentExtract
modified: hostdepend/X86LINUX64/bin/X86LINUX64/pdbShapeFit
modified: hostdepend/X86LINUX64/src/Tools/mrcImage/mrcImageAutoFilamentExtract/src/X86LINUX64/mrcImageAutoFilamentExtract
modified: hostdepend/X86LINUX64/src/Tools/pdbUtil/pdbShapeFit/src/X86LINUX64/pdbShapeFit
modified: src/Tools/mrcImage/mrcImageAutoFilamentExtract/src/mrcImageAutoFilamentExtract.c
modified: src/Tools/pdbUtil/pdbShapeFit/src/pdbShapeFit.c
Takuo Yasunaga [Thu, 6 Mar 2014 10:26:57 +0000 (19:26 +0900)]
Fixed: ticket #33385
modified: hostdepend/X86LINUX64/bin/X86LINUX64/mrcImageFTest
modified: hostdepend/X86LINUX64/src/Tools/mrcImage/mrcImageFTest/src/X86LINUX64/Makefile
modified: hostdepend/X86LINUX64/src/Tools/mrcImage/mrcImageFTest/src/X86LINUX64/mrcImageFTest
modified: src/Tools/mrcImage/mrcImageFTest/src/mrcImageFTest.c
Takuo Yasunaga [Thu, 27 Feb 2014 20:00:25 +0000 (05:00 +0900)]
modified: Makefile
modified: bin/wish/ctfDisplay/ctfDisplay.wish
recompiled for X86MAC64: hostdepend/X86MAC64/bin/X86MAC64/*
recompiled for X86MAC64: hostdepend/X86MAC64/lib/X86MAC64/shared/lmrcImageSummationCalculate.sharedo
eos [Thu, 20 Feb 2014 18:39:59 +0000 (03:39 +0900)]
Rebuild for new versions of OS
Takuo Yasunaga [Wed, 19 Feb 2014 15:06:31 +0000 (00:06 +0900)]
Bug fixed:
mrcImageHighlighting
Takuo Yasunaga [Tue, 18 Feb 2014 21:11:09 +0000 (06:11 +0900)]
Bug fixed:#
matrix3DInverse
vectorImageNearestNeighborMethod
Takuo Yasunaga [Fri, 14 Feb 2014 03:19:59 +0000 (12:19 +0900)]
DensityMode:Bug fixed
modified: src/Objects/DataManip/pdbFile/src/lpdbSurface.c
modified: src/Objects/DataManip/pdbFile/src/lpdbSurface.h
modified: src/Tools/pdbUtil/pdbSurface/Config/OptionControlFile
Takuo Yasunaga [Tue, 11 Feb 2014 19:35:44 +0000 (04:35 +0900)]
modified: Makefile
new file: bin/X86LINUX64ICC
new file: bin/mrcImagePanoramaCreate
modified: hostdepend/X86LINUX64/bin/X86LINUX64/*
modified: hostdepend/X86LINUX64/lib/X86LINUX64/*
modified: hostdepend/X86LINUX64/util/X86LINUX64/lib/libgif.la
modified: hostdepend/X86LINUX64/util/X86LINUX64/lib/libjpeg.a
modified: hostdepend/X86LINUX64/util/X86LINUX64/lib/libtiff.a
new file: hostdepend/X86LINUX64ICC/bin/X86LINUX64ICC/*
new file: hostdepend/X86LINUX64ICC/lib/X86LINUX64ICC/*
modified: include/lmrcImageROI2D.h
modified: sbin/MachineIndependent
modified: src/Makefile
modified: src/Tools/mrcImage/mrcImageROIs/inc/mrcImageROIs.h
modified: util/X86LINUX64ICC
Takuo Yasunaga [Sat, 11 Jan 2014 04:59:10 +0000 (13:59 +0900)]
For showing step by step
modified: Makefile
For >2GB: int -> size_t
modified: src/Objects/DataManip/mrcImage/inc/mrcImage.h
modified: src/Objects/DataManip/mrcImage/src/mrcImageWrite.c
A new tool to detect Object orientations.
new file: src/Tools/mrcImage/mrcImageShapeOrientation/*
Takuo Yasunaga [Wed, 18 Dec 2013 18:28:14 +0000 (03:28 +0900)]
modified: hostdepend/X86LINUX64ICC/*
modified: include/eosPThread.h
modified: src/Tools/*/*/src/Makefile
Takuo Yasunaga [Tue, 26 Nov 2013 04:07:13 +0000 (13:07 +0900)]
Makefile Modification for GPGPU
modified: src/Config/Template/ToolsTemplate.Dir/src/ARCH/Makefile
modified: src/Config/Template/ToolsTemplate.Dir/src/Makefile
Makefile modifiction for GPGPU
modified: src/Config/x86Linux64.inc
pthread bug fix
modified: src/Objects/DataManip/mrcImage/src/lmrcImageFFT.c
modified: src/Objects/DataManip/mrcImage/src/lmrcImageRhoFiltering.c
modified: src/Objects/DataManip/transform/src/lmrc2Dto3D.c
modified: src/Objects/DataManip/transform/src/lmrc2Dto3D.h
modified: src/Objects/General/eosPThread/doc/eosPThread.html
modified: src/Objects/General/eosPThread/inc/eosPThread.h
modified: src/Objects/General/eosPThread/src/eosPThreadMutex.c
modified: src/Tools/rec3d/mrc2Dto3D/ Config/OptionControlFile
Crystal.h modified
modified: src/Objects/General/Crystal/inc/Crystal.h
Takuo Yasunaga [Tue, 29 Oct 2013 16:28:35 +0000 (01:28 +0900)]
new file: bin/mrc2mrc
mrcfile transform
modified: env/Eos_env
for CUDA
new file: eosCuda
new file: include/eosCuda.h
for CUDA
modified: hostdepend/X86LINUX64/*/X86LINUX64/*
new file: hostdepend/X86LINUX64ICC/*/X86LINUX64ICC
for icc
modified: include/Matrix3D.h
modified: include/mrcImage.h
for mrc2mrc
Takuo Yasunaga [Sat, 20 Jul 2013 21:32:31 +0000 (06:32 +0900)]
Modeify compile options for -Wall
modified: src/Config/x86Linux64.inc
Create a new object : eosCuda for CUDA setting
new file: src/Objects/General/eosCuda/
new file: src/Objects/General/eosCuda/inc/eosCuda.h
new file: src/Objects/General/eosCuda/src/eosCuda.c
Add Shepp and Logan models into mrcImageModelCreate
modified: src/Tools/mrcImage/mrcImageModelCreate/src/mrcImageModelCreate.c
modified: src/Objects/DataManip/mrcImage/src/lmrcImageModelCreate.c
modified: src/Objects/DataManip/mrcImage/src/lmrcImageModelCreate.h
Add usage
modified: src/Tools/mrcImage/mrcImageSiemensStar/src/mrcImageSiemensStar.c
Modefy arrayPCA
modified: src/Objects/General/Array/src/arrayPCA.c
Takuo Yasunaga [Fri, 5 Jul 2013 18:15:10 +0000 (03:15 +0900)]
Recompiling ctfDisplay and Display2
Takuo Yasunaga [Wed, 26 Jun 2013 05:26:37 +0000 (14:26 +0900)]
modified: bin/wish/Display2/tclIndex
modified: hostdepend/X86LINUX64/bin/X86LINUX64/*
Takuo Yasunaga [Tue, 25 Jun 2013 21:58:27 +0000 (06:58 +0900)]
modified: src/Tools/mrcImage/mrcImageAutoRotationCorrelation3D/
Add the function of range restriction
related: modified: src/Objects/DataManip/mrcImage/inc/mrcImage.h
related: modified: src/Objects/DataManip/mrcImage/src/mrcImageInfo.c
modified: src/Objects/DataManip/mrcImage/src/lmrcSinogramFET.h
modified: src/Objects/DataManip/mrcImage/src/lmrcSinogramFETPCA.c
related: previous modification for arrayPCA(add average argument);
Takuo Yasunaga [Mon, 24 Jun 2013 00:48:28 +0000 (09:48 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Conflicts:
.gitignore
src/Objects/*/*/doc/*.html
modified: .gitignore
modified: bin/wish/ctfDisplay/ctfDisplay.wish
modified: hostdepend/I386LINUX/*
modified: hostdepend/X86LINUX64/*
modified: hostdepend/X86MAC64/*
modified: include/mrcImage.h
modified: lib/pdbFile.rb
modified: sbin/makegeneral
modified: src/Config/Template/ToolsTemplate.Dir/src/Makefile
deleted: */.../.EosLog
deleted: */.../*.html.orig
modified: src/Tools/*/*/src/Makefile
Takuo Yasunaga [Sat, 15 Jun 2013 07:03:32 +0000 (16:03 +0900)]
make rebuild for X86LINUX64
modified: .gitignore
modified: bin/wish/Display2/tclIndex
Takuo Yasunaga [Fri, 14 Jun 2013 22:00:31 +0000 (07:00 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Conflicts:
sbin/dotSourceInMakefileCreate
src/Makefile
src/Objects/DataExpress/Contour/doc/Contour.html
src/Objects/DataExpress/alsa/doc/alsa.html
src/Objects/DataExpress/avsFile/doc/avsFile.html
src/Objects/DataExpress/gifFile/doc/gifFile.html
src/Objects/General/.Source
src/Tools/Config/Define.inc
src/Tools/Integration/ctfDisplay/Makefile
src/Tools/Makefile
src/Tools/mrcImage/.Source
src/Tools/mrcImage/Makefile
src/Tools/mrcImage/mrcImage3DPad/src/.EosLog
src/Tools/rec3d/.Source
Takuo Yasunaga [Fri, 14 Jun 2013 19:58:31 +0000 (04:58 +0900)]
new file: bin/mrcImageRandomParticlesImageCreate
new file: bin/pointsSetToPDB
modified: bin/wish/Display2/tclIndex
modified: bin/wish/ctfDisplay/ctfDisplay.wish
modified: hostdepend/I386LINUX/bin/I386LINUX/*
modified: hostdepend/I386LINUX/lib/I386LINUX/*
Takuo Yasunaga [Fri, 14 Jun 2013 18:50:44 +0000 (03:50 +0900)]
modified: env/Eos_env
modified: mrcImage3DPad
add: gsl as a free numerical analysis
modified: sbin/dotSourceInMakefileCreate
modified: src/Makefile
typechange: src/Tools/Makefile
modified: src/Tools/*/*/src/Makefile
Takuo Yasunaga [Fri, 14 Jun 2013 18:05:46 +0000 (03:05 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Takuo Yasunaga [Sat, 15 Jun 2013 05:30:46 +0000 (14:30 +0900)]
Rebuild for X68MAC
Takuo Yasunaga [Sat, 15 Jun 2013 00:26:12 +0000 (09:26 +0900)]
Merge branch 'master' of git.sourceforge.jp:/gitroot/eos/base
Conflicts:
src/Tools/mrcImage/mrcImage3DPad/src/.EosLog
Takuo Yasunaga [Sat, 15 Jun 2013 00:22:16 +0000 (09:22 +0900)]
For consistency
Takuo Yasunaga [Sat, 15 Jun 2013 00:17:03 +0000 (09:17 +0900)]
deleted: hostdepend/X86LINUX64/src/Objects/DataExpress/openGL/src/X86LINUX64/lmolviePDBRead.c
Takuo Yasunaga [Fri, 14 Jun 2013 21:05:26 +0000 (06:05 +0900)]
modified: src/Tools/mrcImage/mrcImage3DPad/src/.EosLog
Takuo Yasunaga [Fri, 14 Jun 2013 17:31:56 +0000 (02:31 +0900)]
Delete needless files
Eos-user [Fri, 14 Jun 2013 17:26:59 +0000 (02:26 +0900)]
make rebuild for I386LINUX
Eos-user [Fri, 14 Jun 2013 10:19:49 +0000 (19:19 +0900)]
new file: mrcImageRandomParticlesImageCreate
modified: bin/wish/ctfDisplay/ctfDisplay.wish
modified: hostdepend/I386LINUX/bin/I386LINUX/*
modified: hostdepend/I386LINUX/src/*/*/*/src/I386LINUX/*
modified: src/Tools/Config/Define.inc
typechange: src/Tools/Integration/Makefile
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