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  • Samtools MAC install error

    Hi,

    I am trying to instal samtools on MacBook Pro using this:
    tar -xjvf samtools.tar.bz2
    cd samtools-1.7
    make
    sudo make prefix=/usr/local/bin install


    The following error message came up:
    ....
    cram/cram_io.c:61:10: fatal error: 'lzma.h' file not found
    #include <lzma.h>
    ^
    1 error generated.
    make[1]: *** [cram/cram_io.o] Error 1
    make: *** [htslib-1.7/libhts.a] Error 2
    jcsmr-027583ml:samtools-1.7 u1035854$ sudo make prefix=/usr/local/bin install


    And after the last line it asked for a password. Which password?
    What should I do?
    thanks
    Last edited by Panova; 02-01-2018, 09:12 AM.

  • #2
    Try running ./configure;make first. Does that work? (Check the output carefully from configure too to see if it works only by dint of removing lzma support entirely!)

    If it doesn't, you'll need to install to the lzma dev package; possibly xz-utils-dev or similar? I don't know what it's called on MacOS, but I think the htslib README/INSTALL file explains it all.

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