From: kinoshita-eos Date: Mon, 11 Aug 2014 06:34:12 +0000 (+0900) Subject: Add more 1 tutorial data+tag. X-Git-Tag: v2.0.2.p005 X-Git-Url: http://git.osdn.net/view?a=commitdiff_plain;h=refs%2Ftags%2Fv2.0.2.p005;p=eos%2Ftutorial.git Add more 1 tutorial data+tag. --- diff --git a/Tomography/Tomography1/Input-10--10-0.fit b/Tomography/Tomography1/Input-10--10-0.fit new file mode 100644 index 0000000..6943241 Binary files /dev/null and b/Tomography/Tomography1/Input-10--10-0.fit differ diff --git a/Tomography/Tomography1/Input-10--12-0.fit b/Tomography/Tomography1/Input-10--12-0.fit new file mode 100644 index 0000000..223c5c6 Binary files /dev/null and b/Tomography/Tomography1/Input-10--12-0.fit differ diff --git a/Tomography/Tomography1/Input-10--14-0.fit b/Tomography/Tomography1/Input-10--14-0.fit new file mode 100644 index 0000000..2ec489c Binary files /dev/null and b/Tomography/Tomography1/Input-10--14-0.fit differ diff --git a/Tomography/Tomography1/Input-10--16-0.fit b/Tomography/Tomography1/Input-10--16-0.fit new file mode 100644 index 0000000..edb6679 Binary files /dev/null and b/Tomography/Tomography1/Input-10--16-0.fit differ diff --git a/Tomography/Tomography1/Input-10--18-0.fit b/Tomography/Tomography1/Input-10--18-0.fit new file mode 100644 index 0000000..56a1518 Binary files /dev/null and b/Tomography/Tomography1/Input-10--18-0.fit differ diff --git a/Tomography/Tomography1/Input-10--2-0.fit b/Tomography/Tomography1/Input-10--2-0.fit new file mode 100644 index 0000000..620c577 Binary files /dev/null and b/Tomography/Tomography1/Input-10--2-0.fit differ diff --git a/Tomography/Tomography1/Input-10--20-0.fit b/Tomography/Tomography1/Input-10--20-0.fit new file mode 100644 index 0000000..44fd4b8 Binary files /dev/null and b/Tomography/Tomography1/Input-10--20-0.fit differ diff --git a/Tomography/Tomography1/Input-10--22-0.fit b/Tomography/Tomography1/Input-10--22-0.fit new file mode 100644 index 0000000..4d498a3 Binary files /dev/null and b/Tomography/Tomography1/Input-10--22-0.fit differ diff --git a/Tomography/Tomography1/Input-10--24-0.fit b/Tomography/Tomography1/Input-10--24-0.fit new file mode 100644 index 0000000..65cd7fb Binary files /dev/null and b/Tomography/Tomography1/Input-10--24-0.fit differ diff --git a/Tomography/Tomography1/Input-10--26-0.fit b/Tomography/Tomography1/Input-10--26-0.fit new file mode 100644 index 0000000..8cc0ed0 Binary files /dev/null and b/Tomography/Tomography1/Input-10--26-0.fit differ diff --git a/Tomography/Tomography1/Input-10--28-0.fit b/Tomography/Tomography1/Input-10--28-0.fit new file mode 100644 index 0000000..b6a5704 Binary files /dev/null and b/Tomography/Tomography1/Input-10--28-0.fit differ diff --git a/Tomography/Tomography1/Input-10--30-0.fit b/Tomography/Tomography1/Input-10--30-0.fit new file mode 100644 index 0000000..35958bc Binary files /dev/null and b/Tomography/Tomography1/Input-10--30-0.fit differ diff --git a/Tomography/Tomography1/Input-10--32-0.fit b/Tomography/Tomography1/Input-10--32-0.fit new file mode 100644 index 0000000..aea9f3d Binary files /dev/null and b/Tomography/Tomography1/Input-10--32-0.fit differ diff --git a/Tomography/Tomography1/Input-10--34-0.fit b/Tomography/Tomography1/Input-10--34-0.fit new file mode 100644 index 0000000..e24668f Binary files /dev/null and b/Tomography/Tomography1/Input-10--34-0.fit differ diff --git a/Tomography/Tomography1/Input-10--36-0.fit b/Tomography/Tomography1/Input-10--36-0.fit new file mode 100644 index 0000000..92bd3d2 Binary files /dev/null and b/Tomography/Tomography1/Input-10--36-0.fit differ diff --git a/Tomography/Tomography1/Input-10--38-0.fit b/Tomography/Tomography1/Input-10--38-0.fit new file mode 100644 index 0000000..9af9ef1 Binary files /dev/null and b/Tomography/Tomography1/Input-10--38-0.fit differ diff --git a/Tomography/Tomography1/Input-10--4-0.fit b/Tomography/Tomography1/Input-10--4-0.fit new file mode 100644 index 0000000..b4efe73 Binary files /dev/null and b/Tomography/Tomography1/Input-10--4-0.fit differ diff --git a/Tomography/Tomography1/Input-10--40-0.fit b/Tomography/Tomography1/Input-10--40-0.fit new file mode 100644 index 0000000..e4d84cf Binary files /dev/null and b/Tomography/Tomography1/Input-10--40-0.fit differ diff --git a/Tomography/Tomography1/Input-10--42-0.fit b/Tomography/Tomography1/Input-10--42-0.fit new file mode 100644 index 0000000..2dede6e Binary files /dev/null and b/Tomography/Tomography1/Input-10--42-0.fit differ diff --git a/Tomography/Tomography1/Input-10--44-0.fit b/Tomography/Tomography1/Input-10--44-0.fit new file mode 100644 index 0000000..e17d196 Binary files /dev/null and b/Tomography/Tomography1/Input-10--44-0.fit differ diff --git a/Tomography/Tomography1/Input-10--46-0.fit b/Tomography/Tomography1/Input-10--46-0.fit new file mode 100644 index 0000000..1b6cca6 Binary files /dev/null and b/Tomography/Tomography1/Input-10--46-0.fit differ diff --git a/Tomography/Tomography1/Input-10--48-0.fit b/Tomography/Tomography1/Input-10--48-0.fit new file mode 100644 index 0000000..5fac2aa Binary files /dev/null and b/Tomography/Tomography1/Input-10--48-0.fit differ diff --git a/Tomography/Tomography1/Input-10--50-0.fit b/Tomography/Tomography1/Input-10--50-0.fit new file mode 100644 index 0000000..86454d6 Binary files /dev/null and b/Tomography/Tomography1/Input-10--50-0.fit differ diff --git a/Tomography/Tomography1/Input-10--52-0.fit b/Tomography/Tomography1/Input-10--52-0.fit new file mode 100644 index 0000000..4b65145 Binary files /dev/null and b/Tomography/Tomography1/Input-10--52-0.fit differ diff --git a/Tomography/Tomography1/Input-10--54-0.fit b/Tomography/Tomography1/Input-10--54-0.fit new file mode 100644 index 0000000..451fd8f Binary files /dev/null and b/Tomography/Tomography1/Input-10--54-0.fit differ diff --git a/Tomography/Tomography1/Input-10--56-0.fit b/Tomography/Tomography1/Input-10--56-0.fit new file mode 100644 index 0000000..ccd1dd8 Binary files /dev/null and b/Tomography/Tomography1/Input-10--56-0.fit differ diff --git a/Tomography/Tomography1/Input-10--58-0.fit b/Tomography/Tomography1/Input-10--58-0.fit new file mode 100644 index 0000000..a9ab30e Binary files /dev/null and b/Tomography/Tomography1/Input-10--58-0.fit differ diff --git a/Tomography/Tomography1/Input-10--6-0.fit b/Tomography/Tomography1/Input-10--6-0.fit new file mode 100644 index 0000000..64e4f42 Binary files /dev/null and b/Tomography/Tomography1/Input-10--6-0.fit differ diff --git a/Tomography/Tomography1/Input-10--60-0.fit b/Tomography/Tomography1/Input-10--60-0.fit new file mode 100644 index 0000000..2b00e1c Binary files /dev/null and b/Tomography/Tomography1/Input-10--60-0.fit differ diff --git a/Tomography/Tomography1/Input-10--8-0.fit b/Tomography/Tomography1/Input-10--8-0.fit new file mode 100644 index 0000000..ebca9c1 Binary files /dev/null and b/Tomography/Tomography1/Input-10--8-0.fit differ diff --git a/Tomography/Tomography1/Input-10-0-0.fit b/Tomography/Tomography1/Input-10-0-0.fit new file mode 100644 index 0000000..98635ca Binary files /dev/null and b/Tomography/Tomography1/Input-10-0-0.fit differ diff --git a/Tomography/Tomography1/Input-10-10-0.fit b/Tomography/Tomography1/Input-10-10-0.fit new file mode 100644 index 0000000..521ee0e Binary files /dev/null and b/Tomography/Tomography1/Input-10-10-0.fit differ diff --git a/Tomography/Tomography1/Input-10-12-0.fit b/Tomography/Tomography1/Input-10-12-0.fit new file mode 100644 index 0000000..c070033 Binary files /dev/null and b/Tomography/Tomography1/Input-10-12-0.fit differ diff --git a/Tomography/Tomography1/Input-10-14-0.fit b/Tomography/Tomography1/Input-10-14-0.fit new file mode 100644 index 0000000..d3452ce Binary files /dev/null and b/Tomography/Tomography1/Input-10-14-0.fit differ diff --git a/Tomography/Tomography1/Input-10-16-0.fit b/Tomography/Tomography1/Input-10-16-0.fit new file mode 100644 index 0000000..5716118 Binary files /dev/null and b/Tomography/Tomography1/Input-10-16-0.fit differ diff --git a/Tomography/Tomography1/Input-10-18-0.fit b/Tomography/Tomography1/Input-10-18-0.fit new file mode 100644 index 0000000..fea4c27 Binary files /dev/null and b/Tomography/Tomography1/Input-10-18-0.fit differ diff --git a/Tomography/Tomography1/Input-10-2-0.fit b/Tomography/Tomography1/Input-10-2-0.fit new file mode 100644 index 0000000..6583f6b Binary files /dev/null and b/Tomography/Tomography1/Input-10-2-0.fit differ diff --git a/Tomography/Tomography1/Input-10-20-0.fit b/Tomography/Tomography1/Input-10-20-0.fit new file mode 100644 index 0000000..046f389 Binary files /dev/null and b/Tomography/Tomography1/Input-10-20-0.fit differ diff --git a/Tomography/Tomography1/Input-10-22-0.fit b/Tomography/Tomography1/Input-10-22-0.fit new file mode 100644 index 0000000..7bf0a0a Binary files /dev/null and b/Tomography/Tomography1/Input-10-22-0.fit differ diff --git a/Tomography/Tomography1/Input-10-24-0.fit b/Tomography/Tomography1/Input-10-24-0.fit new file mode 100644 index 0000000..d26f957 Binary files /dev/null and b/Tomography/Tomography1/Input-10-24-0.fit differ diff --git a/Tomography/Tomography1/Input-10-26-0.fit b/Tomography/Tomography1/Input-10-26-0.fit new file mode 100644 index 0000000..e5a8f3f Binary files /dev/null and b/Tomography/Tomography1/Input-10-26-0.fit differ diff --git a/Tomography/Tomography1/Input-10-28-0.fit b/Tomography/Tomography1/Input-10-28-0.fit new file mode 100644 index 0000000..3fb3eb1 Binary files /dev/null and b/Tomography/Tomography1/Input-10-28-0.fit differ diff --git a/Tomography/Tomography1/Input-10-30-0.fit b/Tomography/Tomography1/Input-10-30-0.fit new file mode 100644 index 0000000..e85a822 Binary files /dev/null and b/Tomography/Tomography1/Input-10-30-0.fit differ diff --git a/Tomography/Tomography1/Input-10-32-0.fit b/Tomography/Tomography1/Input-10-32-0.fit new file mode 100644 index 0000000..651b058 Binary files /dev/null and b/Tomography/Tomography1/Input-10-32-0.fit differ diff --git a/Tomography/Tomography1/Input-10-34-0.fit b/Tomography/Tomography1/Input-10-34-0.fit new file mode 100644 index 0000000..ccbe672 Binary files /dev/null and b/Tomography/Tomography1/Input-10-34-0.fit differ diff --git a/Tomography/Tomography1/Input-10-36-0.fit b/Tomography/Tomography1/Input-10-36-0.fit new file mode 100644 index 0000000..c62b152 Binary files /dev/null and b/Tomography/Tomography1/Input-10-36-0.fit differ diff --git a/Tomography/Tomography1/Input-10-38-0.fit b/Tomography/Tomography1/Input-10-38-0.fit new file mode 100644 index 0000000..12585d3 Binary files /dev/null and b/Tomography/Tomography1/Input-10-38-0.fit differ diff --git a/Tomography/Tomography1/Input-10-4-0.fit b/Tomography/Tomography1/Input-10-4-0.fit new file mode 100644 index 0000000..b23b462 Binary files /dev/null and b/Tomography/Tomography1/Input-10-4-0.fit differ diff --git a/Tomography/Tomography1/Input-10-40-0.fit b/Tomography/Tomography1/Input-10-40-0.fit new file mode 100644 index 0000000..b3d3b50 Binary files /dev/null and b/Tomography/Tomography1/Input-10-40-0.fit differ diff --git a/Tomography/Tomography1/Input-10-42-0.fit b/Tomography/Tomography1/Input-10-42-0.fit new file mode 100644 index 0000000..f5e3679 Binary files /dev/null and b/Tomography/Tomography1/Input-10-42-0.fit differ diff --git a/Tomography/Tomography1/Input-10-44-0.fit b/Tomography/Tomography1/Input-10-44-0.fit new file mode 100644 index 0000000..dae2fff Binary files /dev/null and b/Tomography/Tomography1/Input-10-44-0.fit differ diff --git a/Tomography/Tomography1/Input-10-46-0.fit b/Tomography/Tomography1/Input-10-46-0.fit new file mode 100644 index 0000000..c191f33 Binary files /dev/null and b/Tomography/Tomography1/Input-10-46-0.fit differ diff --git a/Tomography/Tomography1/Input-10-48-0.fit b/Tomography/Tomography1/Input-10-48-0.fit new file mode 100644 index 0000000..b80e3ad Binary files /dev/null and b/Tomography/Tomography1/Input-10-48-0.fit differ diff --git a/Tomography/Tomography1/Input-10-50-0.fit b/Tomography/Tomography1/Input-10-50-0.fit new file mode 100644 index 0000000..bf9b1f4 Binary files /dev/null and b/Tomography/Tomography1/Input-10-50-0.fit differ diff --git a/Tomography/Tomography1/Input-10-52-0.fit b/Tomography/Tomography1/Input-10-52-0.fit new file mode 100644 index 0000000..7e97fbf Binary files /dev/null and b/Tomography/Tomography1/Input-10-52-0.fit differ diff --git a/Tomography/Tomography1/Input-10-54-0.fit b/Tomography/Tomography1/Input-10-54-0.fit new file mode 100644 index 0000000..a8cb2eb Binary files /dev/null and b/Tomography/Tomography1/Input-10-54-0.fit differ diff --git a/Tomography/Tomography1/Input-10-56-0.fit b/Tomography/Tomography1/Input-10-56-0.fit new file mode 100644 index 0000000..f324248 Binary files /dev/null and b/Tomography/Tomography1/Input-10-56-0.fit differ diff --git a/Tomography/Tomography1/Input-10-58-0.fit b/Tomography/Tomography1/Input-10-58-0.fit new file mode 100644 index 0000000..7595615 Binary files /dev/null and b/Tomography/Tomography1/Input-10-58-0.fit differ diff --git a/Tomography/Tomography1/Input-10-6-0.fit b/Tomography/Tomography1/Input-10-6-0.fit new file mode 100644 index 0000000..2a8c01e Binary files /dev/null and b/Tomography/Tomography1/Input-10-6-0.fit differ diff --git a/Tomography/Tomography1/Input-10-60-0.fit b/Tomography/Tomography1/Input-10-60-0.fit new file mode 100644 index 0000000..acb0441 Binary files /dev/null and b/Tomography/Tomography1/Input-10-60-0.fit differ diff --git a/Tomography/Tomography1/Input-10-8-0.fit b/Tomography/Tomography1/Input-10-8-0.fit new file mode 100644 index 0000000..e06e16f Binary files /dev/null and b/Tomography/Tomography1/Input-10-8-0.fit differ diff --git a/Tomography/Tomography1/Makefile b/Tomography/Tomography1/Makefile new file mode 100755 index 0000000..1624e7a --- /dev/null +++ b/Tomography/Tomography1/Makefile @@ -0,0 +1,367 @@ +# +# This is a sample Makefile for electron tomography. +# + +#### Input extention and listname #### +# For mrcImageCorrelation +IN_CORR_EXT=mask + +# For mrc2tiff +IN_TIFF_EXT=fit + +# For mrcImageNoiseAdd +IN_NOISE_EXT=roi + +# For mrcImageWindowing +IN_MASK_EXT=nroi + +# For mrcImageTiltAxisSearch +IN_TILT_EXT=fit + +# For Reconstruction +#IN_3D_EXT=fit +IN_3D_EXT=fit + +#### INCLUDE #### +.SUFFIXES: .roi .nroi .mask .tiff .3dlst .3d .fit .tiltinfo .sino .3dradonlst .3dradon .$(IN_TIFF_EXT) .$(IN_CORR_EXT) .$(IN_NOISE_EXT) .$(IN_MASK_EXT) .$(IN_TILT_EXT) .$(IN_TILT_EXT)tmp .$(IN_3D_EXT) + +SHELL=/bin/bash + +-include IN_NOISE_LIST +-include IN_MASK_LIST +-include IN_CORR_LIST_plus +-include IN_CORR_LIST_minus +-include IN_3D_LIST +-include IN_TIFF_LIST + +#### Definition #### + +# Initial Reference Model +#INITIAL=Initial +INITIAL=1WDC-shift1 +#INITIAL=1WDC-9Set +# Target structure name +TARGET=Input + +### For mrc3Dto2D +# RotMode +#ROTMODE=YOYR +ROTMODE=ZOYS +# Rot1 +ROT1MIN=10 +ROT1MAX=10 +ROT1D=10 +ROT1N=`expr \( $(ROT1MAX) - $(ROT1MIN) \) / $(ROT1D) + 1` +# Rot2 +ROT2MIN=-60 +ROT2MAX=60 +ROT2D=2 +ROT2N=`expr \( $(ROT2MAX) - $(ROT2MIN) \) / $(ROT2D) + 1` +# Rot3 +ROT3MIN=0 +ROT3MAX=0 +ROT3D=30 +ROT3N=`expr \( $(ROT3MAX) - $(ROT3MIN) \) / $(ROT3D) + 1` +# Expansion mode +# 0:Mercator 1:Mollweide +EX_MODE=1 +# Interpolation mode : Common with mrc2Dto3D +IN_MODE=2 + +### For mrcImageMove +SHIFT2MAX=10 +SHIFT3MAX=0 + +### For mrcImageNoiseAdd +SNRATIO=3 + +# For mrcImageWindowing +MASK_X=0.2 +MASK_X_MAX=0.2 +MASK_Y=0.1 +MASK_Y_MAX=0.1 +MASK_MODE=18 + +### For mrcImageCorrelation +# mode +COR_MODE=18 +# Reference angle: Rot2, 3 is Usually 0 +ROT1REF=$(ROT1MIN) +ROT2REF=0 +ROT3REF=0 + +### For mrcImageTiltAxisSearch +TILTMIN=0 +TILTMAX=20 +TILTN=10 +TILTITER=1 +TILTSCALE=5 + +### For mrc2Dto3D +# mode +# 0:Simple Back Projection 1:Filter Back Projection +PRJ_MODE=1 +# single (Tilt Axis) +# 0:X-axis 1:Y-axis +AXIS1=1 + +### RadonTransform +PD=2.5 +PHID=10 +THETAD=10 +RBP_MODE=1 + +#### For Works #### +JOP_NUM=-j 3 + +nroi:$(IN_NOISE_LIST:.$(IN_NOISE_EXT)=.nroi) +mask:$(IN_MASK_LIST:.$(IN_MASK_EXT)=.mask) +fit_plus:$(IN_CORR_LIST_plus:.$(IN_CORR_EXT)=.fit) +fit_minus:$(IN_CORR_LIST_minus:.$(IN_CORR_EXT)=.fit) +sino:$(IN_3D_LIST:.$(IN_3D_EXT)=.sino) +tiff:$(IN_TIFF_LIST:.$(IN_TIFF_EXT)=.tiff) + +IN_NOISE_LIST:: + touch IN_NOISE_LIST + echo "IN_NOISE_LIST=\\" > IN_NOISE_LIST + ls -1 *.$(IN_NOISE_EXT) | sed s/$(IN_NOISE_EXT)/$(IN_NOISE_EXT)\\\\/ >> IN_NOISE_LIST + echo "" >> IN_NOISE_LIST + +IN_MASK_LIST:: + touch IN_MASK_LIST + echo "IN_MASK_LIST=\\" > IN_MASK_LIST + ls -1 *.$(IN_MASK_EXT) | sed s/$(IN_MASK_EXT)/$(IN_MASK_EXT)\\\\/ >> IN_MASK_LIST + echo "" >> IN_MASK_LIST + +IN_TILT_LIST:: + touch IN_TILT_LIST + rm IN_TILT_LIST + ls -1 *.$(IN_TILT_EXT) >> IN_TILT_LIST + +IN_3D_LIST:: + touch IN_3D_LIST + echo "IN_3D_LIST=\\" > IN_3D_LIST + ls -1 *.$(IN_3D_EXT) | sed s/$(IN_3D_EXT)/$(IN_3D_EXT)\\\\/ >> IN_3D_LIST + echo "" >> IN_3D_LIST + +IN_TIFF_LIST:: + touch IN_TIFF_LIST + echo "IN_TIFF_LIST=\\" > IN_TIFF_LIST + ls -1 *.$(IN_TIFF_EXT) | sed s/$(IN_TIFF_EXT)/$(IN_TIFF_EXT)\\\\/ >> IN_TIFF_LIST + echo "" >> IN_TIFF_LIST + +#### Commands #### +Help:: + @echo "This is a sample Makefile for electron tomography." + +TestData:: + @for (( rot1 = $(ROT1MIN); rot1 <= $(ROT1MAX); rot1 += $(ROT1D) )) \ + do \ + for (( rot2 = $(ROT2MIN), shift2 = -$(SHIFT2MAX); rot2 <= $(ROT2MAX); rot2 += $(ROT2D), shift2 = ( ( $$rot2 + $(ROT2D) ) * $(SHIFT2MAX) ) / ( $(ROT2MAX) + 1 ) )) \ + do \ + for (( rot3 = $(ROT3MIN), shift3 = -$(SHIFT3MAX); rot3 <= $(ROT3MAX); rot3 += $(ROT3D), shift3 = ( ( $$rot3 + $(ROT3D) ) * $(SHIFT3MAX) ) / ( $(ROT3MAX) + 1 ) )) \ + do \ + echo $$rot1, $$rot2, $$rot3, $$shift2, $$shift3; \ + mrc3Dto2D -i $(INITIAL).3d -o $(TARGET)-$$rot1-$$rot2-$$rot3.roitmp \ + -InterpolationMode $(IN_MODE) -EulerMode $(ROTMODE) \ + -Rot1 $$rot1 $$rot1 1 \ + -Rot2 $$rot2 $$rot2 1 \ + -Rot3 $$rot3 $$rot3 1 ; \ + mrcImageMove -i $(TARGET)-$$rot1-$$rot2-$$rot3.roitmp -o $(TARGET)-$$rot1-$$rot2-$$rot3.roi \ + -x $$shift2 \ + -y $$shift3; \ + rm $(TARGET)-$$rot1-$$rot2-$$rot3.roitmp; \ + done \ + done \ + done + +NoiseAdd:: + make IN_NOISE_LIST; + make $(JOP_NUM) nroi; + +All:: + make Windowing; + make CorFit1; + make CorFit2; +# make TiltFit; + make 3D; + make Radon3D; + +Windowing:: + make IN_MASK_LIST; + make $(JOP_NUM) mask; + +CorFit1:: + cp $(TARGET)-$(ROT1REF)-$(ROT2REF)-$(ROT3REF).$(IN_CORR_EXT) $(TARGET)-$(ROT1REF)-$(ROT2REF)-$(ROT3REF).fit + cp $(TARGET)-$(ROT1REF)-$(ROT2REF)-$(ROT3REF).$(IN_CORR_EXT) $(TARGET).tmp; + make IN_CORR_LIST1; + make fit_plus; + make fit_minus; + rm $(TARGET).tmp; + +IN_CORR_LIST1:: + touch IN_CORR_LIST_plus; + rm IN_CORR_LIST_plus; + echo "IN_CORR_LIST_plus=\\" > IN_CORR_LIST_plus; + @for (( rot2 = $(ROT2REF) + $(ROT2D) ; rot2 <= $(ROT2MAX); rot2 += $(ROT2D) )) \ + do \ + echo $(TARGET)-$(ROT1REF)-$$rot2-$(ROT3REF).$(IN_CORR_EXT) | sed s/$(IN_CORR_EXT)/$(IN_CORR_EXT)\\\\/ >> IN_CORR_LIST_plus; \ + done + echo "" >> IN_CORR_LIST_plus; + + touch IN_CORR_LIST_minus; + rm IN_CORR_LIST_minus; + echo "IN_CORR_LIST_minus=\\" > IN_CORR_LIST_minus; + @for (( rot2 = $(ROT2REF) - $(ROT2D) ; rot2 >= $(ROT2MIN); rot2 -= $(ROT2D) )) \ + do \ + echo $(TARGET)-$(ROT1REF)-$$rot2-$(ROT3REF).$(IN_CORR_EXT) | sed s/$(IN_CORR_EXT)/$(IN_CORR_EXT)\\\\/ >> IN_CORR_LIST_minus; \ + done + echo "" >> IN_CORR_LIST_minus; + +CorFit2:: + @for (( rot2 = $(ROT2MIN) ; rot2 <= $(ROT2MAX); rot2 += $(ROT2D) )) \ + do \ + export rot2; \ + make IN_CORR_LIST2; \ + cp $(TARGET)-$(ROT1REF)-$$rot2-$(ROT3REF).fit $(TARGET).tmp; \ + make fit_plus; \ + make fit_minus; \ + done + rm $(TARGET).tmp; + +IN_CORR_LIST2:: + touch IN_CORR_LIST_plus; + rm IN_CORR_LIST_plus; + echo "IN_CORR_LIST_plus=\\" > IN_CORR_LIST_plus; + @for (( rot3 = $(ROT3REF) + $(ROT3D) ; rot3 <= $(ROT3MAX); rot3 += $(ROT3D) )) \ + do \ + echo $(TARGET)-$(ROT1REF)-$(rot2)-$$rot3.$(IN_CORR_EXT) | sed s/$(IN_CORR_EXT)/$(IN_CORR_EXT)\\\\/ >> IN_CORR_LIST_plus; \ + done + echo "" >> IN_CORR_LIST_plus + + touch IN_CORR_LIST_minus; + rm IN_CORR_LIST_minus; + echo "IN_CORR_LIST_minus=\\" > IN_CORR_LIST_minus; + @for (( rot3 = $(ROT3REF) - $(ROT3D) ; rot3 >= $(ROT3MIN); rot3 -= $(ROT3D) )) \ + do \ + echo $(TARGET)-$(ROT1REF)-$(rot2)-$$rot3.$(IN_CORR_EXT) | sed s/$(IN_CORR_EXT)/$(IN_CORR_EXT)\\\\/ >> IN_CORR_LIST_minus; \ + done + echo "" >> IN_CORR_LIST_minus; + +TiltFit:: + make IN_TILT_LIST; + @cp $(TARGET)-$(ROT1REF)-$(ROT2REF)-$(ROT3REF).$(IN_TILT_EXT) $(TARGET).$(IN_TILT_EXT)tmp; + make $(TARGET).tiltinfo; + +3D:: + make 3DList; + make $(TARGET).3d; + +3DList:: + touch $(TARGET).3dlst; + touch $(TARGET).tiltinfo; + rm $(TARGET).3dlst; + @for (( rot1 = $(ROT1MIN); rot1 <= $(ROT1MAX); rot1 += $(ROT1D) )) \ + do \ + for (( rot2 = $(ROT2MIN); rot2 <= $(ROT2MAX); rot2 += $(ROT2D) )) \ + do \ + for (( rot3 = $(ROT3MIN); rot3 <= $(ROT3MAX); rot3 += $(ROT3D) )) \ + do \ + echo $(TARGET)-$$rot1-$$rot2-$$rot3.$(IN_3D_EXT) $(ROTMODE) `cat $(TARGET).tiltinfo`0 $$rot2 $$rot3 >> $(TARGET).3dlst; \ + done \ + done \ + done + +Radon3D:: + make IN_3D_LIST; + make $(JOP_NUM) sino; + make 3DRadonList; + make $(TARGET).3dradon; + make $(TARGET).3d; + +3DRadonList:: + touch $(TARGET).3dradonlst; + touch $(TARGET).tiltinfo; + rm $(TARGET).3dradonlst; + @for (( rot1 = $(ROT1MIN); rot1 <= $(ROT1MAX); rot1 += $(ROT1D) )) \ + do \ + for (( rot2 = $(ROT2MIN); rot2 <= $(ROT2MAX); rot2 += $(ROT2D) )) \ + do \ + for (( rot3 = $(ROT3MIN); rot3 <= $(ROT3MAX); rot3 += $(ROT3D) )) \ + do \ + echo $(TARGET)-$$rot1-$$rot2-$$rot3.sino $(ROTMODE) `cat $(TARGET).tiltinfo`0 $$rot2 $$rot3 >> $(TARGET).3dradonlst; \ + done \ + done \ + done + +Tiff:: + make IN_TIFF_LIST; + make $(JOP_NUM) tiff; + +3DTiff:: + make $(TARGET).tiff + +Test:: + @tiltmax=`expr "scale=$(TILTSCALE); $(TILTMAX)" | bc -l`; \ + tiltmin=`expr "scale=$(TILTSCALE); $(TILTMIN)" | bc -l`; \ + tiltw=`expr "scale=$(TILTSCALE); $$tiltmax - $$tiltmin" | bc -l`; \ + for (( iter = 1; iter <= $(TILTITER); iter += 1 )) \ + do \ + tiltd=`expr "scale=$(TILTSCALE); $$tiltw / $(TILTN)" | bc -l`; \ + echo $$tiltmin $$tiltmax $$tiltd; \ + tmp_p=`cat $(TARGET).tiltinfo`; \ + echo $$tmp_p; \ + tiltw=`expr "scale=$(TILTSCALE); $$tiltw / 2" | bc -l`; \ + tiltmin=`expr "scale=$(TILTSCALE); $$tmp_p - ( $$tiltw / 2 )" | bc -l`; \ + tiltmax=`expr "scale=$(TILTSCALE); $$tmp_p + ( $$tiltw / 2 )" | bc -l`; \ + done; + + +##### Commands(Input to Output) ##### +.$(IN_NOISE_EXT).nroi: + mrcImageNoiseAdd -i $*.$(IN_NOISE_EXT) -o $*.nroi -SN $(SNRATIO); + +.$(IN_MASK_EXT).mask: + mrcImageWindowing -i $*.$(IN_MASK_EXT) -o $*.mask -m $(MASK_MODE) -W $(MASK_X) $(MASK_X_MAX) $(MASK_Y) $(MASK_Y_MAX) 2> /dev/null; + +.$(IN_CORR_EXT).fit: + mrcImageCorrelation -i $*.$(IN_CORR_EXT) -r $(TARGET).tmp -s $*.fit 2> /dev/null; + cp $*.fit $(TARGET).tmp + +.$(IN_TILT_EXT)tmp.tiltinfo: + @tiltmax=`expr "scale=$(TILTSCALE); $(TILTMAX)" | bc -l`; \ + tiltmin=`expr "scale=$(TILTSCALE); $(TILTMIN)" | bc -l`; \ + tiltw=`expr "scale=$(TILTSCALE); $$tiltmax - $$tiltmin" | bc -l`; \ + for (( iter = 1; iter <= $(TILTITER); iter += 1 )) \ + do \ + tiltd=`expr "scale=$(TILTSCALE); $$tiltw / $(TILTN)" | bc -l`; \ + mrcImageTiltAxisSearch -I IN_TILT_LIST -r $(TARGET).$(IN_TILT_EXT)tmp -o $(TARGET).tilt -O $(TARGET).tiltinfo -range $$tiltmin $$tiltmax $$tiltd 2> /dev/null; \ + tmp_p=`cat $(TARGET).tiltinfo`; \ + echo $$tmp_p; \ + tiltmin=`expr "scale=$(TILTSCALE); $$tmp_p - ( $$tiltw / 2 )" | bc -l`; \ + tiltmax=`expr "scale=$(TILTSCALE); $$tmp_p + ( $$tiltw / 2 )" | bc -l`; \ + done; + +.3dlst.3d: + mrc2Dto3D -I $*.3dlst -o $*.3d -InterpolationMode $(IN_MODE) -m $(PRJ_MODE) -single $(AXIS1); +# mrc2Dto3D -I $*.3dlst -o $*.3d -InterpolationMode $(IN_MODE) -m $(PRJ_MODE) -Double; + +.$(IN_3D_EXT).sino: + mrcImageSinogramCreate -i $*.$(IN_3D_EXT) -o $*.sino -dphi $(PHID); + +.3dradonlst.3dradon: + mrcRadon2Dto3D -I $*.3dradonlst -o $*.3dradon -ow $*.3dradonw -dp $(PD) -dtheta $(THETAD) -dphi $(PHID) -InterpolationMode $(IN_MODE); + +.3dradon.3d: + mrcImageInverseRadonTransform -i $*.3dradon -o $*.3d -bpm $(RBP_MODE); + +.$(IN_TIFF_EXT).tiff: + mrc2tiff -i $*.$(IN_TIFF_EXT) -o $*.tiff 2> /dev/null; + +.3d.tiff: + @for (( loop_num = 0; loop_num <= 2; loop_num += 1 )) \ + do \ + mrcImageProjection -i $(TARGET).3d -o $(TARGET).tmp -m $$loop_num; \ + mrc2tiff -i $(TARGET).tmp -o $(TARGET)$$loop_num.tiff; \ + done; + rm $(TARGET).tmp;