freebsd-ports/biology
Dmitry Marakasov 30a00f2227 Most commonly used build systems support silent builds, when they
hide actual commands executed and only show short summary line (like
"CC foo.c"). CMake and ninja enable this by default, some autotools
using ports do as well. This is unacceptable because we need complete
build logs at any time, so we now switch to verbose build logs
unconditionally. Note that this change deliberately affects ALL
builds and not only package builds on cluster, because we need to
be sure that user experiencing failure can always provide informative
build log regardless of settings and without rerunning the build.

Change summary:

- Always do verbose builds for cmake, ninja and GNU configure (the
  latter includes check if --disable-silent-rules is actually supported
  by the configure script; there are isolated cases when it's not true)
- Remove CMAKE_VERBOSE, NINJA_VERBOSE and
  CONFIGURE_ARGS=--disable-silent-rules from all ports which set them
  for this is no longer needed
- Revert hacks for --disable-silent-rules support priorly committed
  to biology/ncbi-blast+ and net-p2p/mldonkey - no longer needed as well

Submitted by:	amdmi3
Reviewed by:	mat
Exp-run by:	antoine
Approved by:	portmgr (mat, antoine)
Differential Revision:	D7534
2016-09-09 19:42:46 +00:00
..
ariadne Cleanup $() variables in ports Makefiles. 2016-07-20 15:33:20 +00:00
artemis
avida
babel
bcftools
bedtools biology/bedtools is not jobs safe 2016-08-22 04:32:18 +00:00
biococoa
biojava When there is a do-install target, do not use a post-install target, do 2016-07-19 11:04:13 +00:00
blat
bowtie
bowtie2
bwa
cd-hit
cdbfasta
chemeq
clustalw
consed - Replace Mk/bsd.linux-apps.mk and Mk/bsd.linux-rpm.mk with 2016-09-05 19:23:42 +00:00
crux
diamond - Update to 0.8.20 2016-09-06 06:34:59 +00:00
emboss - update libgd to 2.2.2 2016-07-20 09:33:31 +00:00
fasta
fasta3
fastdnaml
fastool
fasttree
fastx-toolkit
fluctuate
garlic
gff2ps
gmap
gperiodic
grappa
hmmer
htslib
iolib
jalview
jellyfish
lagan
lamarc - Switch to options helpers 2016-08-18 09:31:58 +00:00
libgtextutils
libsbml
linux-foldingathome - Replace Mk/bsd.linux-apps.mk and Mk/bsd.linux-rpm.mk with 2016-09-05 19:23:42 +00:00
mafft
mapm3
migrate
molden biology/molden: 5.4 -> 5.7 2016-08-26 06:00:47 +00:00
mopac
mrbayes
mummer
muscle
ncbi-blast+ Most commonly used build systems support silent builds, when they 2016-09-09 19:42:46 +00:00
ncbi-toolkit
p5-AcePerl
p5-Bio-ASN1-EntrezGene
p5-Bio-Das
p5-Bio-Das-Lite
p5-Bio-GFF3
p5-Bio-Glite
p5-Bio-Graphics
p5-Bio-MAGETAB
p5-Bio-NEXUS
p5-Bio-Phylo
p5-Bio-SCF
p5-bioperl
p5-bioperl-run
p5-transdecoder
paml
phrap
phred
phylip
phyml
plink
plinkseq
primer3
protomol
psi88
py-biom-format
py-biopython
pycogent - Update to 1.9 [1] 2016-08-08 11:21:04 +00:00
pyfasta
python-nexus
recombine When there is a do-install target, do not use a post-install target, do 2016-07-19 11:04:13 +00:00
ruby-bio
samtools
seaview
seqan
seqan1 When there is a do-install target, do not use a post-install target, do 2016-07-19 11:04:13 +00:00
seqan-apps
seqio
seqtools biology/seqtools: 4.42.1 -> 4.43.0 2016-07-31 14:19:09 +00:00
sim4
slclust
ssaha
t_coffee
tinker
treepuzzle
treeviewx
trimmomatic
tRNAscan-SE
ugene
vcftools
velvet
wise
xmolwt
Makefile