| Revisión | 56a4d4d4ca99fbc1ffefc53bef5a860a4f026daf (tree) |
|---|---|
| Tiempo | 2014-09-10 16:07:51 |
| Autor | kinoshita-eos <kinoshita@yasu...> |
| Commiter | kinoshita-eos |
Modify: Change inverse before CTF file name
modified: CTFCorrection/CTFCorrection2/Makefile
Add: one tutorial data of CTF Correction.
new file: CTFCorrection/CTFCorrection3/Makefile
CTFCorrection/CTFCorrection2/Makefile (diff) CTFCorrection/CTFCorrection3/Makefile (diff)| @@ -95,7 +95,7 @@ ProcessForInput:: | ||
| 95 | 95 | make $(INPUT).$(CTF_2D_EXT); |
| 96 | 96 | ln -s $(INPUT).$(CTF_2D_EXT) $(INPUT).mrc; |
| 97 | 97 | mrc2tiff -i $(INPUT).$(INPUT_2D_EXT) -o $(INPUT)_org.tiff; |
| 98 | - mrc2tiff -i $(INPUT).$(CTF_2D_EXT) -o $(INPUT).tiff -I; | |
| 98 | + mrc2tiff -i $(INPUT).$(CTF_2D_EXT) -o $(INPUT)_i.tiff -I; | |
| 99 | 99 | mrc2tiff -i $(INPUT).$(CTF_2D_EXT) -o $(INPUT).tif; |
| 100 | 100 | |
| 101 | 101 |
| @@ -0,0 +1,84 @@ | ||
| 1 | +# | |
| 2 | +# This is Maikefile for CTF Correction Demo. | |
| 3 | +# | |
| 4 | + | |
| 5 | +#### Input extention #### | |
| 6 | + | |
| 7 | +#### Suffixes rule #### | |
| 8 | +.SUFFIXES: .ctfinfoauto2 .ctfinfo1 | |
| 9 | + | |
| 10 | +#### INCLUDE #### | |
| 11 | +#-include ../CTFCorrection1/Makefile | |
| 12 | +-include ../CTFCorrection2/Makefile | |
| 13 | +#-include Makefile.common | |
| 14 | +#-include Makefile.common2 | |
| 15 | +-include CTFAuto2List | |
| 16 | +-include CTFInfo1List | |
| 17 | + | |
| 18 | +#### Definition #### | |
| 19 | + | |
| 20 | + | |
| 21 | +#### Rules of the list created #### | |
| 22 | +ctfinfoauto2: $(FFTS:.fft=.ctfinfoauto2) | |
| 23 | +ctfinfo1: $(CTFAuto2List:.ctfinfoauto2=.ctfinfo1) | |
| 24 | + | |
| 25 | +CTFAuto2List:: | |
| 26 | + echo "CTFAuto2List=\\" > CTFAuto2List | |
| 27 | + ls -1 *.ctfinfoauto2 | sed s/ctfinfoauto2/ctfinfoauto2\\\\/ >> CTFAuto2List | |
| 28 | + echo "" >> CTFAuto2List | |
| 29 | + | |
| 30 | +CTFInfo1List:: | |
| 31 | + echo "CTFInfo1List=\\" > CTFInfo1List | |
| 32 | + ls -1 *.ctfinfo1 | sed s/ctfinfo1/ctfinfo1\\\\/ >> CTFInfo1List | |
| 33 | + echo "" >> CTFInfo1List | |
| 34 | + | |
| 35 | +##### Commands ##### | |
| 36 | +all1:: | |
| 37 | +# make InitialCTFDataFromPDB; | |
| 38 | + make InitialSiemensStar; | |
| 39 | +# make InitialCTFDataFromMRC; | |
| 40 | + make ProcessForInput; | |
| 41 | + make ProcessForInput2; | |
| 42 | + make TIF2CTF2; | |
| 43 | + make $(INPUT).tiff | |
| 44 | + make $(INPUT)-2.tiff | |
| 45 | + make ImageAverage; | |
| 46 | + | |
| 47 | +ProcessForInput2:: | |
| 48 | + mrcImageCTFObservation -i $(INPUT).$(INPUT_2D_EXT) -o $(INPUT)-2.$(CTF_2D_EXT) -df 9000; | |
| 49 | + ln -s $(INPUT)-2.$(CTF_2D_EXT) $(INPUT)-2.mrc; | |
| 50 | + mrc2tiff -i $(INPUT)-2.$(INPUT_2D_EXT) -o $(INPUT)-2_org.tiff; | |
| 51 | + mrc2tiff -i $(INPUT)-2.$(CTF_2D_EXT) -o $(INPUT)-2_i.tiff -I; | |
| 52 | + mrc2tiff -i $(INPUT)-2.$(CTF_2D_EXT) -o $(INPUT)-2.tif; | |
| 53 | + | |
| 54 | +TIF2CTF2:: | |
| 55 | + make TIFS; make $(JN) mrc; | |
| 56 | + make MRCS; make $(JN) cen; | |
| 57 | + make CENS; make $(JN) nor; | |
| 58 | + make NORS; make $(JN) fft; | |
| 59 | + make FFTS; | |
| 60 | + make $(JN) ctfinfoauto2; | |
| 61 | + make CTFAutoList; make ctfinfo; | |
| 62 | +# touch $(INPUT).ctfinfo | |
| 63 | +# touch $(INPUT)-2.ctfinfo | |
| 64 | + make CTFInfoList; make $(JN) ctf; | |
| 65 | +# make CTFS; | |
| 66 | + | |
| 67 | +ImageAverage:: | |
| 68 | + touch CTF_LIST; | |
| 69 | + rm CTF_LIST; | |
| 70 | + ls -1 *.ctf >> CTF_LIST; | |
| 71 | + mrcImageAverage -i CTF_LIST -o $(INPUT).avg; | |
| 72 | + mrc2tiff -i $(INPUT).avg -o $(INPUT)_avg.tiff; | |
| 73 | + | |
| 74 | +##### Commands(Input to Output) ##### | |
| 75 | +.fft.ctfinfoauto2: | |
| 76 | + ctfDetermine -i $*.fft -o $*.ctfinfoauto2 -D 27000 \ | |
| 77 | + -CutLow 0.025 -CutHigh 0.15 -d 3 -Cc 0.7 -Cs 2.1 \ | |
| 78 | + -BofMTF 1 -Ai 0.14 -Noise 0.2 -I0 1.3; | |
| 79 | + mv $*.ctfinfoauto2 $*.ctfinfoauto; | |
| 80 | + | |
| 81 | +.ctfinfoauto2.ctfinfo1: | |
| 82 | + cat $*.ctfinfoauto2 >> $*.ctfinfo1 ; | |
| 83 | + mv $*.ctfinfo1 $*.ctfinfo; | |
| 84 | + | |
| \ No newline at end of file |
Fork