Mercurial > repos > ryanmorin > nextgen_variant_identification
comparison SNV/SNVMix2_source/SNVMix2-v0.12.1-rc1/samtools-0.1.6/examples/Makefile @ 0:74f5ea818cea
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author | ryanmorin |
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date | Wed, 12 Oct 2011 19:50:38 -0400 |
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-1:000000000000 | 0:74f5ea818cea |
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1 all:../libbam.a ../samtools ex1.glf ex1.pileup.gz ex1.bam.bai ex1.glfview.gz calDepth | |
2 @echo; echo \# You can now launch the viewer with: \'samtools tview ex1.bam ex1.fa\'; echo; | |
3 | |
4 ex1.fa.fai:ex1.fa | |
5 ../samtools faidx ex1.fa | |
6 ex1.bam:ex1.sam.gz ex1.fa.fai | |
7 ../samtools import ex1.fa.fai ex1.sam.gz ex1.bam | |
8 ex1.bam.bai:ex1.bam | |
9 ../samtools index ex1.bam | |
10 ex1.pileup.gz:ex1.bam ex1.fa | |
11 ../samtools pileup -cf ex1.fa ex1.bam | gzip > ex1.pileup.gz | |
12 ex1.glf:ex1.bam ex1.fa | |
13 ../samtools pileup -gf ex1.fa ex1.bam > ex1.glf | |
14 ex1.glfview.gz:ex1.glf | |
15 ../samtools glfview ex1.glf | gzip > ex1.glfview.gz | |
16 | |
17 ../samtools: | |
18 (cd ..; make samtools) | |
19 | |
20 ../libbam.a: | |
21 (cd ..; make libbam.a) | |
22 | |
23 calDepth:../libbam.a calDepth.c | |
24 gcc -g -Wall -O2 -I.. calDepth.c -o $@ -lm -lz -L.. -lbam | |
25 | |
26 clean: | |
27 rm -fr *.bam *.bai *.glf* *.fai *.pileup* *~ calDepth *.dSYM |