![]() ![]() Try which samtools to see the samtools binary that appears first in our PATH and therefore will be the one used when we specify samtools without specifying a particular location of the binary. ![]() We do this because there may be other samtools binaries in our PATH. samtools tells the commandline that you want to execute the samtools binary in the current directory. Once the build is complete, we test that it worked by attempting to execute the samtools binary. samtools index sampleID.bam samtools mpileup -r contigName:1,958,700-1,958,907 sampleID. Perhaps consider just adding samtools install into the conda. When make is run without options, it attempts the “default goal” in the make file which is the first “target” defined. Ive got an error when installing samtools-1.3 with your standard install script. The following tool is installed by downloading a compressed archive using wget, decompressing it using bunzip2, unpacking the archive using tar, and building the source code using make to run compiler commands in the “Makefile” provided with the tool. Installation type: build C++ binary from source code using make.
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