Report bug - brew install Gnuastro

[Iris Jermann]

Hi,

 

I am trying to install gnuastro on my MacBook Pro (Apple M1 Max, 64 GB, Sequoia 15.2) to use NoiseChisel. I have gotten this error message and request to report it.

 

Note that I am having other issues because I have installed gnuastro with anaconda some time ago. A few days ago, I have tried to brew install it. I was asked to update my MacOS, which I did from 12.x to 15.2. I am now having conflicts with the anaconda version.

 

Also not note that I had a conflict with the version of gnuastro and cfitsio version. By default it has installed gnuastro0.5 and this one is not compatible with cfitsio 4.xx , only with cfitsio 3.xx. Since I had cfitsio 4. installed, I had to wget the gnuastro1.18 version.

 

Best wishes,

Iris

 

 

(base) SPC-DQPF9VK006-5:gnuastro-0.18 irisj$ make check -j4

/Library/Developer/CommandLineTools/usr/bin/make  check-recursive

Making check in bootstrapped/lib

/Library/Developer/CommandLineTools/usr/bin/make  check-recursive

make[4]: Nothing to be done for `check-am'.

Making check in lib

make[2]: Nothing to be done for `check'.

Making check in bin/arithmetic

make[2]: Nothing to be done for `check'.

Making check in bin/convertt

make[2]: Nothing to be done for `check'.

Making check in bin/convolve

make[2]: Nothing to be done for `check'.

Making check in bin/cosmiccal

make[2]: Nothing to be done for `check'.

Making check in bin/crop

make[2]: Nothing to be done for `check'.

Making check in bin/fits

make[2]: Nothing to be done for `check'.

Making check in bin/match

make[2]: Nothing to be done for `check'.

Making check in bin/mkcatalog

make[2]: Nothing to be done for `check'.

Making check in bin/mknoise

make[2]: Nothing to be done for `check'.

Making check in bin/mkprof

make[2]: Nothing to be done for `check'.

Making check in bin/noisechisel

make[2]: Nothing to be done for `check'.

Making check in bin/query

make[2]: Nothing to be done for `check'.

Making check in bin/segment

make[2]: Nothing to be done for `check'.

Making check in bin/statistics

make[2]: Nothing to be done for `check'.

Making check in bin/table

make[2]: Nothing to be done for `check'.

Making check in bin/warp

make[2]: Nothing to be done for `check'.

Making check in bin/script

make[2]: Nothing to be done for `check'.

Making check in doc

/Library/Developer/CommandLineTools/usr/bin/make  check-am

make[3]: Nothing to be done for `check-am'.

Making check in tests

/Library/Developer/CommandLineTools/usr/bin/make  multithread versioncxx

depbase=`echo lib/multithread.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\

       gcc -DHAVE_CONFIG_H -I. -I..  -I\../lib -I\../lib -I/opt/homebrew/opt/cfitsio/include -I/opt/homebrew/opt/gsl/include -I/opt/homebrew/opt/wcslib/include -I/usr/local/include  -Wall -O3  -pthread -MT lib/multithread.o -MD -MP -MF $depbase.Tpo -c -o lib/multithread.o lib/multithread.c &&\

       mv -f $depbase.Tpo $depbase.Po

depbase=`echo lib/versioncxx.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\

       g++ -DHAVE_CONFIG_H -I. -I..  -I\../lib -I\../lib -I/opt/homebrew/opt/cfitsio/include -I/opt/homebrew/opt/gsl/include -I/opt/homebrew/opt/wcslib/include -I/usr/local/include  -Wall -O3 -pthread -MT lib/versioncxx.o -MD -MP -MF $depbase.Tpo -c -o lib/versioncxx.o lib/versioncxx.cpp &&\

       mv -f $depbase.Tpo $depbase.Po

/bin/sh ../libtool  --tag=CC   --mode=link gcc  -Wall -O3  -pthread -L\../lib -L/opt/homebrew/opt/cfitsio/lib -L/opt/homebrew/opt/gsl/lib -L/opt/homebrew/opt/wcslib/lib -o multithread lib/multithread.o -lgnuastro -L/opt/homebrew/opt/wcslib/lib -lwcs -R/opt/homebrew/opt/wcslib/lib -L/opt/homebrew/opt/cfitsio/lib -lcfitsio -R/opt/homebrew/opt/cfitsio/lib -lcurl -lbz2 -lz -L/usr/local/lib -lgsl -L/usr/local/lib -lgslcblas -lm -R/usr/local/lib -lm  -lpthread 

libtool: link: gcc -Wall -O3 -o .libs/multithread lib/multithread.o  -L../lib -L/opt/homebrew/opt/cfitsio/lib -L/opt/homebrew/opt/gsl/lib -L/opt/homebrew/opt/wcslib/lib /Users/irisj/gnuastro-0.18/lib/.libs/libgnuastro.dylib -L/usr/local/lib /usr/local/lib/libgsl.dylib /usr/local/lib/libgslcblas.dylib -lc -lwcs -lcfitsio -lcurl -lbz2 -lz -lgsl -lgslcblas -lm -lpthread -pthread

/bin/sh ../libtool  --tag=CXX   --mode=link g++  -Wall -O3 -pthread -L\../lib -L/opt/homebrew/opt/cfitsio/lib -L/opt/homebrew/opt/gsl/lib -L/opt/homebrew/opt/wcslib/lib -o versioncxx lib/versioncxx.o -lgnuastro -L/opt/homebrew/opt/wcslib/lib -lwcs -R/opt/homebrew/opt/wcslib/lib -L/opt/homebrew/opt/cfitsio/lib -lcfitsio -R/opt/homebrew/opt/cfitsio/lib -lcurl -lbz2 -lz -L/usr/local/lib -lgsl -L/usr/local/lib -lgslcblas -lm -R/usr/local/lib -lm  -lpthread 

libtool: link: g++ -Wall -O3 -o .libs/versioncxx lib/versioncxx.o -Wl,-bind_at_load  -L../lib -L/opt/homebrew/opt/cfitsio/lib -L/opt/homebrew/opt/gsl/lib -L/opt/homebrew/opt/wcslib/lib /Users/irisj/gnuastro-0.18/lib/.libs/libgnuastro.dylib -L/usr/local/lib /usr/local/lib/libgsl.dylib /usr/local/lib/libgslcblas.dylib -lc -lwcs -lcfitsio -lcurl -lbz2 -lz -lgsl -lgslcblas -lm -lpthread -pthread

ld: warning: -bind_at_load is deprecated on macOS

/Library/Developer/CommandLineTools/usr/bin/make  check-TESTS

PASS: prepconf.sh

PASS: lib/versioncxx.sh

PASS: arithmetic/onlynumbers.sh

PASS: convolve/spectrum-1d.sh

FAIL: mkprof/mosaic1.sh

PASS: mkprof/mosaic3.sh

PASS: mkprof/mosaic4.sh

PASS: mkprof/mosaic2.sh

SKIP: crop/imgcenter.sh

SKIP: crop/imgcenternoblank.sh

SKIP: crop/imgpolygon.sh

SKIP: crop/imgpolygonout.sh

SKIP: fits/write.sh

PASS: cosmiccal/simpletest.sh

PASS: crop/wcspolygon.sh

PASS: match/merged-cols.sh

PASS: match/kdtree-internal.sh

PASS: match/sort-based.sh

PASS: match/kdtree-separate.sh

PASS: mkprof/radeccat.sh

PASS: mkprof/3d-kernel.sh

PASS: mkprof/3d-cat.sh

PASS: statistics/from-stdin.sh

PASS: table/sexagesimal-to-deg.sh

PASS: table/txt-to-fits-ascii.sh

PASS: table/txt-to-fits-binary.sh

SKIP: script/psf-subtract.sh

SKIP: script/psf-scale-factor.sh

SKIP: lib/multithread.sh

SKIP: convolve/spatial.sh

SKIP: convertt/fitstotxt.sh

SKIP: convertt/fitstojpeg.sh

SKIP: convertt/blankch.sh

SKIP: convertt/jpegtotxt.sh

SKIP: convertt/fitstojpegcmyk.sh

SKIP: convertt/jpegtofits.sh

SKIP: crop/section.sh

SKIP: convolve/frequency.sh

SKIP: convolve/psf-match.sh

SKIP: crop/imgcat.sh

PASS: crop/wcscat.sh

PASS: crop/wcscenter.sh

SKIP: fits/print.sh

SKIP: fits/update.sh

SKIP: fits/delete.sh

SKIP: fits/copyhdu.sh

PASS: script/psf-stamp.sh

PASS: table/fits-binary-to-txt.sh

PASS: table/fits-ascii-to-txt.sh

PASS: mknoise/addnoise-3d.sh

SKIP: warp/homographic.sh

SKIP: warp/warp_scale.sh

SKIP: convertt/fitstopdf.sh

SKIP: mknoise/addnoise.sh

SKIP: noisechisel/noisechisel.sh

SKIP: mkprof/clearcanvas.sh

SKIP: mkprof/ellipticalmasks.sh

SKIP: statistics/basicstats.sh

SKIP: statistics/estimate_sky.sh

SKIP: arithmetic/snimage.sh

SKIP: arithmetic/where.sh

SKIP: segment/segment.sh

SKIP: arithmetic/connected-components.sh

SKIP: mkcatalog/objects-clumps.sh

SKIP: mkcatalog/aperturephot.sh

SKIP: script/psf-select-stars.sh

SKIP: arithmetic/or.sh

SKIP: mkcatalog/detections.sh

SKIP: script/sort-by-night.sh

PASS: script/psf-unite.sh

PASS: script/radial-profile.sh

PASS: noisechisel/noisechisel-3d.sh

PASS: segment/segment-3d.sh

PASS: mkcatalog/simple-3d.sh

============================================================================

Testsuite summary for GNU Astronomy Utilities 0.18

============================================================================

# TOTAL: 74

# PASS:  31

# SKIP:  42

# XFAIL: 0

# FAIL:  1

# XPASS: 0

# ERROR: 0

============================================================================

See tests/test-suite.log

Please report to bug-gnuastro@gnu.org

============================================================================

make[4]: *** [test-suite.log] Error 1

make[3]: *** [check-TESTS] Error 2

make[2]: *** [check-am] Error 2

make[1]: *** [check-recursive] Error 1

make: *** [check] Error 2