Make error (lzma.h: No such file or directory)

[galaxyrise]

Hi,

I just tried installing vt and ran into a lzma.h: No such file or directory error when running make. Any advice you might have on working around this issue would be appreciated.

Here is the full make output:

cd lib/htslib; make libhts.a || exit 1; 
make[1]: Entering directory `/apps/gau/vt_versions/vt_20170413/vt/lib/htslib'
echo '/* Default config.h generated by Makefile */' > config.h
echo '#define HAVE_LIBBZ2 1' >> config.h
echo '#define HAVE_LIBLZMA 1' >> config.h
gcc -g -Wall -O2 -I.  -c -o kfunc.o kfunc.c
gcc -g -Wall -O2 -I.  -c -o knetfile.o knetfile.c
gcc -g -Wall -O2 -I.  -c -o kstring.o kstring.c
gcc -g -Wall -O2 -I.  -c -o bcf_sr_sort.o bcf_sr_sort.c
gcc -g -Wall -O2 -I.  -c -o bgzf.o bgzf.c
gcc -g -Wall -O2 -I.  -c -o errmod.o errmod.c
gcc -g -Wall -O2 -I.  -c -o faidx.o faidx.c
gcc -g -Wall -O2 -I.  -c -o hfile.o hfile.c
gcc -g -Wall -O2 -I.  -c -o hfile_net.o hfile_net.c
echo '#define HTS_VERSION "1.4"' > version.h
gcc -g -Wall -O2 -I.  -c -o hts.o hts.c
gcc -g -Wall -O2 -I.  -c -o md5.o md5.c
gcc -g -Wall -O2 -I.  -c -o multipart.o multipart.c
gcc -g -Wall -O2 -I.  -c -o probaln.o probaln.c
gcc -g -Wall -O2 -I.  -c -o realn.o realn.c
gcc -g -Wall -O2 -I.  -c -o regidx.o regidx.c
gcc -g -Wall -O2 -I.  -c -o sam.o sam.c
gcc -g -Wall -O2 -I.  -c -o synced_bcf_reader.o synced_bcf_reader.c
gcc -g -Wall -O2 -I.  -c -o vcf_sweep.o vcf_sweep.c
gcc -g -Wall -O2 -I.  -c -o tbx.o tbx.c
gcc -g -Wall -O2 -I.  -c -o textutils.o textutils.c
gcc -g -Wall -O2 -I.  -c -o thread_pool.o thread_pool.c
gcc -g -Wall -O2 -I.  -c -o vcf.o vcf.c
gcc -g -Wall -O2 -I.  -c -o vcfutils.o vcfutils.c
gcc -g -Wall -O2 -I.  -c -o cram/cram_codecs.o cram/cram_codecs.c
gcc -g -Wall -O2 -I.  -c -o cram/cram_decode.o cram/cram_decode.c
gcc -g -Wall -O2 -I.  -c -o cram/cram_encode.o cram/cram_encode.c
gcc -g -Wall -O2 -I.  -c -o cram/cram_external.o cram/cram_external.c
gcc -g -Wall -O2 -I.  -c -o cram/cram_index.o cram/cram_index.c
gcc -g -Wall -O2 -I.  -c -o cram/cram_io.o cram/cram_io.c
cram/cram_io.c:60:18: error: lzma.h: No such file or directory
cram/cram_io.c: In function ‘lzma_mem_deflate’:
cram/cram_io.c:865: warning: implicit declaration of function ‘lzma_stream_buffer_bound’
cram/cram_io.c:871: error: ‘LZMA_OK’ undeclared (first use in this function)
cram/cram_io.c:871: error: (Each undeclared identifier is reported only once
cram/cram_io.c:871: error: for each function it appears in.)
cram/cram_io.c:871: warning: implicit declaration of function ‘lzma_easy_buffer_encode’
cram/cram_io.c:871: error: ‘LZMA_CHECK_CRC32’ undeclared (first use in this function)
cram/cram_io.c: In function ‘lzma_mem_inflate’:
cram/cram_io.c:881: error: ‘lzma_stream’ undeclared (first use in this function)
cram/cram_io.c:881: error: expected ‘;’ before ‘strm’
cram/cram_io.c:887: error: ‘LZMA_OK’ undeclared (first use in this function)
cram/cram_io.c:887: warning: implicit declaration of function ‘lzma_stream_decoder’
cram/cram_io.c:887: error: ‘strm’ undeclared (first use in this function)
cram/cram_io.c:887: warning: implicit declaration of function ‘lzma_easy_decoder_memusage’
cram/cram_io.c:902: warning: implicit declaration of function ‘lzma_code’
cram/cram_io.c:902: error: ‘LZMA_RUN’ undeclared (first use in this function)
cram/cram_io.c:903: error: ‘LZMA_STREAM_END’ undeclared (first use in this function)
cram/cram_io.c:915: error: ‘LZMA_FINISH’ undeclared (first use in this function)
cram/cram_io.c:924: warning: implicit declaration of function ‘lzma_end’
make[1]: *** [cram/cram_io.o] Error 1
make[1]: Leaving directory `/apps/gau/vt_versions/vt_20170413/vt/lib/htslib'
make: *** [lib/htslib/libhts.a] Error 1

[galaxyrise]

Answering my own question for posterity: Make completed successfully after I ran 'yum install xz-devel'.

[ACEnglish]

Note for others... On Ubuntu 14.04.5 LTS with apt-get, use the command:
apt-get install liblzma-dev