wtsi-npg / bambi

Process Illumina instrument data into SAM/BAM/CRAM files.
http://wtsi-npg.github.io/bambi
GNU Affero General Public License v3.0
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recent autotools requires 'subdir-objects' #49

Closed dkj closed 7 years ago

dkj commented 7 years ago

Running autoreconf -if, to generate the configure file, on Xenial and Yakkety errors out.

Seems to need:

AM_INIT_AUTOMAKE([subdir-objects -Wall -Werror foreign tar-pax no-dependencies])

rather than

AM_INIT_AUTOMAKE([-Wall -Werror foreign tar-pax no-dependencies])

in configure.ac

jenniferliddle commented 7 years ago

Making this change causes Travis to fail with an error:

gcc -DHAVE_CONFIG_H -I. -I../../test -I..  -I/home/travis/build/wtsi-npg/bambi/htslib/b/include  -std=gnu99 -Werror  -I../../src -DDATA_DIR=/home/travis/build/wtsi-npg/bambi/bambi-0.9.5-8-g50a40f0/_build/../test/data -g -O2 -c -o t_read2tags-t_read2tags.o `test -f 't_read2tags.c' || echo '../../test/'`t_read2tags.c

/bin/bash: ../../src/.dirstamp: Permission denied

More investigation required.

jenniferliddle commented 7 years ago

Fixed with PR #79