I am using Wind River Workbench 3.3 and VxWorks 6.8. When using building from the command line everything works, but when I attempt to build within Workbench I get errors. In attempting to track it down, I have determined that the same problem occurs when creating a new VxWorks Image Project using our board support package and the gnu tool chain.
I created a new project and attempt to build it in the default_romCompress build spec. I get the following errors.
romInit.o: In function `delay_100us':
C:/WindRiver/vxworks-6.8/target/config/mrim/romInit.s:649: undefined reference to `romStart'
C:/WindRiver/vxworks-6.8/target/config/mrim/romInit.s:650: undefined reference to `romStart'
make.exe[1]: *** [vxWorks_romCompress] Error 1
rm ipcom_ipdomain
make.exe[1]: Leaving directory `D:/WindRiverWorkbench/Test/default_romCompress'
C:\WindRiver\utilities-1.0\x86-win32\bin\make.exe: *** [target_vxWorks] Error 2
Build Failed in Project 'Test' (Process Exit Value was 2): 2014-01-14 17:22:11 (Elapsed Time: 00:06)
the symbol romStart is defined in romStart.c, which is part of the project. When I attempt to compile just romStart.c I get the following output.
Build Started in Project 'Test': 2014-01-15 08:57:25
Generation of makefiles started.
Generation of makefiles finished (Elapsed Time: 00:00).
Platform: Wind River VxWorks 6.8
Command: make BUILD_SPEC=default_romCompress DEBUG_MODE=0 TRACE=1 default_romCompress/romStart.o
Working Directory: D:/WindRiverWorkbench/Test
make.exe[1]: Entering directory `D:/WindRiverWorkbench/Test'
make.exe[2]: Entering directory `D:/WindRiverWorkbench/Test/default_romCompress'
ccppc -c -DCPU_VARIANT=_ppc860 -g -msoft-float -mstrict-align -ansi -fno-builtin -Wall -D_VSB_CONFIG_FILE=\"C:/WindRiver/vxworks-6.8/target/lib/h/config/vsbConfig.h\" -mcpu=860 -I.. -IC:/WindRiver/vxworks-6.8/target/config/mrim -IC:/WindRiver/vxworks-6.8/target/h -IC:/WindRiver/vxworks-6.8/target/config/comps/src -IC:/WindRiver/vxworks-6.8/target/h/wrn/coreip -IC:/WindRiver/vxworks-6.8/target/src/drv -DCPU=PPC32 -DTOOL_FAMILY=gnu -DTOOL=sfgnu -DPRJ_BUILD -D_WRS_KERNEL -IC:/WindRiver/components/windml-5.3/h -IC:/WindRiver/components/webservices-1.7/h -IC:/WindRiver/components/webcli-4.8/target/h -IC:/WindRiver/components/opc-3.2/h -IC:/WindRiver/components/dcom-2.3/h -IC:/WindRiver/components/windml-5.3/osconfig/vxworks/src -IC:/WindRiver/components/ip_net2-6.8/osconfig/vxworks/src -IC:/WindRiver/components/windml-5.3/osconfig/vxworks/h -IC:/WindRiver/components/ip_net2-6.8/osconfig/vxworks/h -IC:/WindRiver/vxworks-6.8/target/src/hwif -IC:/WindRiver/vxworks-6.8/target/src/hwif/h #./ipcom_ipdomain -DIP_PORT_VXWORKS=68 -DINET -UCPU -DCPU=PPC860 -I. -MD -fvolatile -G8 -msdata=eabi -DROM_COMPRESS -DRAM_DATA_ADRS=0x00e00000 -DRAM_DST_ADRS=0x00010000 C:/WindRiver/vxworks-6.8/target/config/comps/src/romStart.c -o romStart.o
ccppc: #./ipcom_ipdomain: No such file or directory
make.exe[2]: *** [romStart.o] Error 1
make.exe[2]: Leaving directory `D:/WindRiverWorkbench/Test/default_romCompress'
make.exe[1]: *** [compile_romStart.o] Error 2
make.exe[1]: Leaving directory `D:/WindRiverWorkbench/Test'
C:\WindRiver\utilities-1.0\x86-win32\bin\make.exe: *** [default_romCompress/romStart.o] Error 2
Build Failed in Project 'Test' (Process Exit Value was 2): 2014-01-15 08:57:26 (Elapsed Time: 00:01)
However, if I attempt to compile romStart.c a second time, then it succeeds
If I again try to build the project (not clean and not rebuild), then it fails again with the following output.
Build Started in Project 'Test': 2014-01-15 08:58:36
Generation of makefiles started.
Generation of makefiles finished (Elapsed Time: 00:00).
Platform: Wind River VxWorks 6.8
Command: make BUILD_SPEC=default_romCompress DEBUG_MODE=0 TRACE=1
Working Directory: D:/WindRiverWorkbench/Test
building default vxWorks image of D:/WindRiverWorkbench/Test
make.exe[1]: Entering directory `D:/WindRiverWorkbench/Test/default_romCompress'
cp vxWorks vxWorks.o
true vxWorks.o
objcopyppc -O binary --binary-without-bss vxWorks.o tmp.bin
VX_CPU_FAMILY=ppc C:/WindRiver/vxworks-6.8/host/x86-win32/bin/deflate < tmp.bin > tmp.Z
Deflation: 53.98%
VX_CPU_FAMILY=ppc C:/WindRiver/vxworks-6.8/host/x86-win32/bin/binToAsm tmp.Z > vxWorks.Z.s
ccppc -c -DCPU_VARIANT=_ppc860 -g -msoft-float -mstrict-align -ansi -fno-builtin -xassembler-with-cpp -D_VSB_CONFIG_FILE=\"C:/WindRiver/vxworks-6.8/target/lib/h/config/vsbConfig.h\" -mcpu=860 -I.. -IC:/WindRiver/vxworks-6.8/target/config/mrim -IC:/WindRiver/vxworks-6.8/target/h -IC:/WindRiver/vxworks-6.8/target/config/comps/src -IC:/WindRiver/vxworks-6.8/target/h/wrn/coreip -IC:/WindRiver/vxworks-6.8/target/src/drv -DCPU=PPC32 -DTOOL_FAMILY=gnu -DTOOL=sfgnu -DPRJ_BUILD -D_WRS_KERNEL -IC:/WindRiver/components/windml-5.3/h -IC:/WindRiver/components/webservices-1.7/h -IC:/WindRiver/components/webcli-4.8/target/h -IC:/WindRiver/components/opc-3.2/h -IC:/WindRiver/components/dcom-2.3/h -IC:/WindRiver/components/windml-5.3/osconfig/vxworks/src -IC:/WindRiver/components/ip_net2-6.8/osconfig/vxworks/src -IC:/WindRiver/components/windml-5.3/osconfig/vxworks/h -IC:/WindRiver/components/ip_net2-6.8/osconfig/vxworks/h -IC:/WindRiver/vxworks-6.8/target/src/hwif -IC:/WindRiver/vxworks-6.8/target/src/hwif/h #./ipcom_ipdomain -DIP_PORT_VXWORKS=68 -DINET -UCPU -DCPU=PPC860 -I. -MD vxWorks.Z.s -o vxWorks.Z.o
ccppc: #./ipcom_ipdomain: No such file or directory
make.exe[1]: *** [vxWorks_romCompress] Error 1
make.exe[1]: Leaving directory `D:/WindRiverWorkbench/Test/default_romCompress'
C:\WindRiver\utilities-1.0\x86-win32\bin\make.exe: *** [target_vxWorks] Error 2
Build Failed in Project 'Test' (Process Exit Value was 2): 2014-01-15 08:58:37 (Elapsed Time: 00:01)
Can anyone suggest how I might go about fixing these problems?
Related
I have installed Bazel through Chocolatey on Windows and MSYS2 to have access to bash.exe.
A script I am trying to build uses g++ which I installed through pacman in MSYS2 and also added to PATH. I am able to run g++ --version in both the MSYS2 shell and my native Powershell.
But somehow it seems as if MSYS2 can't run g++ when I am running it through Bazel.
C:/<censored>> bazel build //kernels:rasterize_triangles_kernel
INFO: Analyzed target //kernels:rasterize_triangles_kernel (0 packages loaded, 0 targets configured).
INFO: Found 1 target...
ERROR: C:/<censored>/kernels/BUILD:20:8: Executing genrule //kernels:rasterize_triangles_kernel failed: (Exit 127): bash.exe failed: error executing command (from target //kernels:rasterize_triangles_kernel) C:\msys64\usr\bin\bash.exe -c ... (remaining 1 argument skipped)
/usr/bin/bash: line 1: g++: command not found
Target //kernels:rasterize_triangles_kernel failed to build
Use --verbose_failures to see the command lines of failed build steps.
INFO: Elapsed time: 4.883s, Critical Path: 4.80s
INFO: 2 processes: 2 internal.
FAILED: Build did NOT complete successfully
I'm building drake from source, specifically this branch of Russ' fork:
https://github.com/RussTedrake/drake
everything worked without issue until the last command make -j
where I get the following output:
[ 12%] Performing build step for 'drake_cxx_python'
INFO: Analyzed target //:install (0 packages loaded, 0 targets configured).
INFO: Found 1 target...
ERROR: /Users/chewchiashaoyuan/Documents/Software/drake/bindings/pydrake/BUILD.bazel:780:22: GenerateMypyStubs bindings/pydrake/pydrake/__init__.pyi failed: (Exit 1): stubgen failed: error executing command bazel-out/darwin-opt/bin/bindings/pydrake/stubgen --quiet '--package=pydrake' '--output=bazel-out/darwin-opt/bin/bindings/pydrake'
Use --sandbox_debug to see verbose messages from the sandbox and retain the sandbox build root for debugging
Matplotlib created a temporary config/cache directory at /var/folders/sl/37m0k__51_3_5c5j02w201r40000gn/T/matplotlib-8mr5qkfg because the default path (/Users/chewchiashaoyuan/.matplotlib) is not a writable directory; it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.
Critical error during semantic analysis: /usr/local/lib/python3.10/site-packages/pydrake/symbolic.pyi:203: error: invalid syntax
Target //:install failed to build
Use --verbose_failures to see the command lines of failed build steps.
ERROR: /Users/chewchiashaoyuan/Documents/Software/drake/BUILD.bazel:63:8 Middleman _middlemen/install-runfiles failed: (Exit 1): stubgen failed: error executing command bazel-out/darwin-opt/bin/bindings/pydrake/stubgen --quiet '--package=pydrake' '--output=bazel-out/darwin-opt/bin/bindings/pydrake'
Use --sandbox_debug to see verbose messages from the sandbox and retain the sandbox build root for debugging
INFO: Elapsed time: 9.617s, Critical Path: 9.33s
INFO: 2 processes: 2 internal.
FAILED: Build did NOT complete successfully
make[2]: *** [drake_cxx_python-prefix/src/drake_cxx_python-stamp/drake_cxx_python-build] Error 1
make[1]: *** [CMakeFiles/drake_cxx_python.dir/all] Error 2
make: *** [all] Error 2
My operating system is:
macOS Monterey Version 12.6
The full make -j -d output is here
I referenced https://drake.mit.edu/from_source.html, https://drake.mit.edu/bazel.html#snopt and https://github.com/RobotLocomotion/drake/issues/12175
I did the following:
git clone https://github.com/RussTedrake/drake
cd drake
git checkout kin_traj_opt2
./setup/mac/install_prereqs.sh
cd ..
mkdir drake-build
cd drake-build
cmake -DWITH_ROBOTLOCOMOTION_SNOPT=ON ../drake
make -j
Fixes attempted:
tried deleting the whole drake-build directory and doing the whole process from scratch, got the same errors
One filename from the error message stands out: /usr/local/lib/python3.10/site-packages/pydrake/symbolic.pyi. It looks like you have sudo pip install drake installed into a system-wide directory. That is likely interfering with the from-source build of Drake and will need to be removed.
Here is the error I'm getting when trying to deploy to Heroku using the most recent stack (20)
Gem::Ext::BuildError: ERROR: Failed to build gem native extension.
current directory:
/tmp/build_20bfe735/vendor/bundle/ruby/2.6.0/gems/prawn-gmagick-0.0.9/ext/image
/tmp/build_20bfe735/vendor/ruby-2.6.6/bin/ruby -I
/tmp/build_20bfe735/vendor/ruby-2.6.6/lib/ruby/2.6.0 -r
./siteconf20210328-11397-1gaqmyj.rb extconf.rb
creating Makefile
current directory:
/tmp/build_20bfe735/vendor/bundle/ruby/2.6.0/gems/prawn-gmagick-0.0.9/ext/image
make "DESTDIR=" clean
current directory:
/tmp/build_20bfe735/vendor/bundle/ruby/2.6.0/gems/prawn-gmagick-0.0.9/ext/image
make "DESTDIR="
compiling image.c
image.c:3:10: fatal error: wand/magick_wand.h: No such file or directory
3 | #include <wand/magick_wand.h>
| ^~~~~~~~~~~~~~~~~~~~
compilation terminated.
make: *** [Makefile:245: image.o] Error 1
make failed, exit code 2
Same error after I tried this buildpack with graphicsmagick
https://elements.heroku.com/buildpacks/bogini/heroku-buildpack-graphicsmagick
So, after playing a bit I made it work by adding 3 additional dependencies to the Aptfile in the example above
libgraphicsmagick++3
libgraphicsmagick++1-dev
libgraphicsmagick-q16-3
So the final Aptfile looks like this
debhelper
g++
gsfonts
libbz2-dev
libexif-dev
libfreetype6-dev
libice-dev
libjbig-dev
libjpeg-dev
liblcms2-dev
libltdl-dev
libpng-dev
libsm-dev
libtiff-dev
libwebp-dev
libwmf-dev
libx11-dev
libxext-dev
libxml2-dev
perl
sharutils
transfig
x11proto-core-dev
zlib1g-dev
libgraphicsmagick++3
libgraphicsmagick++1-dev
libgraphicsmagick-q16-3
And my buildpacks setup:
1. https://github.com/heroku/heroku-buildpack-apt
2. https://github.com/bogini/heroku-buildpack-graphicsmagick
3. heroku/ruby
Do you guys see any problem with any of those dependencies and setup?
I'm creating a Dockerfile for my Rust package, following the example shown here: https://alexbrand.dev/post/how-to-package-rust-applications-into-minimal-docker-containers/
FROM rust:1.47.0 AS build
WORKDIR /usr/src
RUN rustup target add x86_64-unknown-linux-musl
RUN apt-get update
RUN apt-get install cmake musl-tools clang libc++-dev build-essential autoconf libtool pkg-config
# Create a dummy project and build the app's dependencies.
# If the Cargo.toml or Cargo.lock files have not changed,
# we can use the docker build cache and skip these (typically slow) steps.
RUN USER=root cargo new mypackage
WORKDIR /usr/src/mypackage
COPY Cargo.toml build.rs ./
COPY .git ./.git
RUN cargo build --release
# Copy the source and build the application.
COPY src ./src
RUN cargo install --target x86_64-unknown-linux-musl --path .
However, it fails at the step with cargo install, which appears to be because it's unable to find musl-g++. That seems strange.
Am I misunderstanding the error? I'm a bit lost as to how to move forward with this.
Here is the entire message:
Step 12/16 : RUN cargo install --target x86_64-unknown-linux-musl --path .
---> Running in d861b7efa994
...
error: failed to run custom build command for `libmimalloc-sys v0.1.18`
Caused by:
process didn't exit successfully: `/usr/src/mypackage/target/release/build/libmimalloc-sys-9ec3b6c9ac1c8d9d/build-script-build` (exit code: 101)
--- stdout
running: "cmake" "/usr/local/cargo/registry/src/github.com-1ecc6299db9ec823/libmimalloc-sys-0.1.18/c_src/mimalloc" "-DMI_OVERRIDE=OFF" "-DMI_BUILD_TESTS=OFF" "-DMI_SECURE=OFF" "-DMI_LOCAL_DYNAMIC_TLS=OFF" "-Dmi_defines=MI_DEBUG=0" "-DCMAKE_INSTALL_PREFIX=/usr/src/mypackage/target/x86_64-unknown-linux-musl/release/build/libmimalloc-sys-ea7ff527a98597ef/out" "-DCMAKE_C_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_C_COMPILER=/usr/bin/musl-gcc" "-DCMAKE_CXX_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_CXX_COMPILER=musl-g++" "-DCMAKE_ASM_FLAGS= -ffunction-sections -fdata-sections -fPIC -m64" "-DCMAKE_ASM_COMPILER=/usr/bin/musl-gcc" "-DCMAKE_BUILD_TYPE=Release"
-- The C compiler identification is GNU 8.3.0
-- The CXX compiler identification is unknown
-- Check for working C compiler: /usr/bin/musl-gcc
-- Check for working C compiler: /usr/bin/musl-gcc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Configuring incomplete, errors occurred!
See also "/usr/src/mypackage/target/x86_64-unknown-linux-musl/release/build/libmimalloc-sys-ea7ff527a98597ef/out/build/CMakeFiles/CMakeOutput.log".
See also "/usr/src/mypackage/target/x86_64-unknown-linux-musl/release/build/libmimalloc-sys-ea7ff527a98597ef/out/build/CMakeFiles/CMakeError.log".
--- stderr
CMake Error at CMakeLists.txt:2 (project):
The CMAKE_CXX_COMPILER:
musl-g++
is not a full path and was not found in the PATH.
Tell CMake where to find the compiler by setting either the environment
variable "CXX" or the CMake cache entry CMAKE_CXX_COMPILER to the full path
to the compiler, or to the compiler name if it is in the PATH.
thread 'main' panicked at '
command did not execute successfully, got: exit code: 1
build script failed, must exit now', /usr/local/cargo/registry/src/github.com-1ecc6299db9ec823/cmake-0.1.45/src/lib.rs:894:5
note: run with `RUST_BACKTRACE=1` environment variable to display a backtrace
warning: build failed, waiting for other jobs to finish...
error: failed to compile `mypackage v0.1.0 (/usr/src/mypackage)`, intermediate artifacts can be found at `/usr/src/mypackage/target`
Caused by:
build failed
I would start by running the base image only interactively and look for musl-g++. If not found, add the installation to the Dockerfile and try again.
I'm trying to install SCIP on OSX mavericks. I've downloaded the tarball here, extracted it, and have tried to compile it using
make scipoptlib GMP=false ZLIB=false READLINE=false SHARED=true
This gives me error 1 below. My interpretation of error 1 is that /usr/local/lib/libisl.10.dylib does not exist. That's correct: I have isl.0.14.1, located at /usr/local/Cellar/isl/0.14.1. And in fact I can't install isl.0.10.1, because the compiler options it expects don't work with the current version of gcc (I think; see error 2 below).
Can I tell SCIP to use isl.0.14.1, and if so, how?
**error 1:**
** Extracting SoPlex archive "/Applications/scipoptsuite-3.2.0/soplex-2.2.0.tgz".
** Extracting ZIMPL archive "/Applications/scipoptsuite-3.2.0/zimpl-3.3.3.tgz".
** Extracting SCIP archive "/Applications/scipoptsuite-3.2.0/scip-3.2.0.tgz".
** compile libraries statically with compiler flag -fPIC
rm -rf obj/O.darwin.x86_64.gnu.normal.opt/* bin/zimpl-3.3.3.darwin.x86_64.gnu.normal.opt lib/libzimpl-3.3.3.darwin.x86_64.gnu.opt.a lib/libzimpl-3.3.3.darwin.x86_64.gnu.opt.dbl.a lib/libzimpl.darwin.x86_64.gnu.opt.a bin/zimpl.darwin.x86_64.gnu.opt bin/zimpl
** Creating directory "/Applications/scipoptsuite-3.2.0/scip-3.2.0/lib".
** Creating directory "/Applications/scipoptsuite-3.2.0/scip-3.2.0/lib/zimplinc".
** Building SoPlex library "/Applications/scipoptsuite-3.2.0/soplex-2.2.0/lib/libsoplex.darwin.x86_64.gnu.opt.a".
-> compiling obj/O.darwin.x86_64.gnu.opt/lib/changesoplex.o
dyld: Library not loaded: /usr/local/lib/libisl.10.dylib
Referenced from: /usr/local/Cellar/gcc/4.9.1/libexec/gcc/x86_64-apple-darwin13.2.0/4.9.1/cc1plus
Reason: image not found
g++: internal compiler error: Trace/BPT trap: 5 (program cc1plus)
make[4]: *** [obj/O.darwin.x86_64.gnu.opt/lib/changesoplex.o] Abort trap: 6
make[3]: [makelibfile] Error 2 (ignored)
-> compiling obj/O.darwin.x86_64.gnu.opt/lib/changesoplex.o
dyld: Library not loaded: /usr/local/lib/libisl.10.dylib
Referenced from: /usr/local/Cellar/gcc/4.9.1/libexec/gcc/x86_64-apple-darwin13.2.0/4.9.1/cc1plus
Reason: image not found
g++: internal compiler error: Trace/BPT trap: 5 (program cc1plus)
make[4]: *** [obj/O.darwin.x86_64.gnu.opt/lib/changesoplex.o] Abort trap: 6
make[3]: [all] Error 2 (ignored)
** ZIMPL support disabled.
** Creating necessary soft-links.
** Building SCIP libraries and executable.
-> generating necessary links
- Current settings: LPS=spx OSTYPE=darwin ARCH=x86_64 COMP=gnu SUFFIX= ZIMPL=false ZIMPLOPT=opt IPOPT=false IPOPTOPT=opt EXPRINT=cppad GAMS=false
* SCIP needs some softlinks to external programs, in particular, LP-solvers.
* Please insert the paths to the corresponding directories/libraries below.
* The links will be installed in the 'lib' directory.
* For more information and if you experience problems see the INSTALL file.
-> "spxinc" is the path to the SoPlex "src" directory, e.g., "../../soplex/src".
-> "libsoplex.*" is the path to the SoPlex library, e.g., "../../soplex/lib/libsoplex.darwin.x86_64.gnu.opt.a"
-> compiling obj/O.darwin.x86_64.gnu.opt/lib/scip/branch_allfullstrong.o
dyld: Library not loaded: /usr/local/lib/libisl.10.dylib
Referenced from: /usr/local/Cellar/gcc/4.9.1/libexec/gcc/x86_64-apple-darwin13.2.0/4.9.1/cc1
Reason: image not found
gcc: internal compiler error: Trace/BPT trap: 5 (program cc1)
make[4]: *** [obj/O.darwin.x86_64.gnu.opt/lib/scip/branch_allfullstrong.o] Abort trap: 6
make[3]: *** [makesciplibfile] Error 2
make[2]: *** [scipbinary] Error 2
make[1]: *** [scipbinary] Error 2
make: *** [scipoptlib] Error 2
error 2, produced by running ./configure in libisl.10 directory:
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by isl configure 0.10, which was
generated by GNU Autoconf 2.68. Invocation command line was
$ ./configure
## --------- ##
## Platform. ##
## --------- ##
hostname = dhcp-143-183.caltech.edu
uname -m = x86_64
uname -r = 13.4.0
uname -s = Darwin
uname -v = Darwin Kernel Version 13.4.0: Wed Mar 18 16:20:14 PDT 2015; root:xnu-2422.115.14~1/RELEASE_X86_64
/usr/bin/uname -p = i386
/bin/uname -X = unknown
/bin/arch = unknown
/usr/bin/arch -k = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo = Mach kernel version:
Darwin Kernel Version 13.4.0: Wed Mar 18 16:20:14 PDT 2015; root:xnu-2422.115.14~1/RELEASE_X86_64
Kernel configured for up to 4 processors.
2 processors are physically available.
4 processors are logically available.
Processor type: i486 (Intel 80486)
Processors active: 0 1 2 3
Primary memory available: 16.00 gigabytes
Default processor set: 327 tasks, 1905 threads, 4 processors
Load average: 4.32, Mach factor: 0.47
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /Users/madeleine/anaconda/bin/
PATH: /usr/local/bin
PATH: /usr/bin
PATH: /bin
PATH: /usr/sbin
PATH: /sbin
PATH: /usr/local/bin
PATH: /opt/X11/bin
PATH: /usr/local/go/bin
PATH: /usr/texbin
PATH: /usr/bin
PATH: /bin
PATH: /usr/sbin
PATH: /sbin
PATH: /opt/local/bin
PATH: /opt/local/sbin
PATH: /Applications/spark-0.9.1-bin-hadoop2/bin
PATH: /Applications/Julia-0.3.8.app/Contents/Resources/julia/bin
## ----------- ##
## Core tests. ##
## ----------- ##
configure:2762: checking for a BSD-compatible install
configure:2830: result: /usr/bin/install -c
configure:2841: checking whether build environment is sane
configure:2891: result: yes
configure:3032: checking for a thread-safe mkdir -p
configure:3071: result: ./install-sh -c -d
configure:3084: checking for gawk
configure:3114: result: no
configure:3084: checking for mawk
configure:3114: result: no
configure:3084: checking for nawk
configure:3114: result: no
configure:3084: checking for awk
configure:3100: found /usr/bin/awk
configure:3111: result: awk
configure:3122: checking whether make sets $(MAKE)
configure:3144: result: yes
configure:3287: checking for gcc
configure:3303: found /usr/local/bin/gcc
configure:3314: result: gcc
configure:3543: checking for C compiler version
configure:3552: gcc --version >&5
gcc (Homebrew gcc 4.9.1) 4.9.1
Copyright (C) 2014 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
configure:3563: $? = 0
configure:3552: gcc -v >&5
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/usr/local/Cellar/gcc/4.9.1/libexec/gcc/x86_64-apple-darwin13.2.0/4.9.1/lto-wrapper
Target: x86_64-apple-darwin13.2.0
Configured with: ../configure --build=x86_64-apple-darwin13.2.0 --prefix=/usr/local/Cellar/gcc/4.9.1 --enable-languages=c,c++,objc,obj-c++,fortran --program-suffix=-4.9 --with-gmp=/usr/local/opt/gmp --with-mpfr=/usr/local/opt/mpfr --with-mpc=/usr/local/opt/libmpc --with-cloog=/usr/local/opt/cloog --with-isl=/usr/local/opt/isl --with-system-zlib --enable-version-specific-runtime-libs --enable-libstdcxx-time=yes --enable-stage1-checking --enable-checking=release --enable-lto --disable-werror --with-pkgversion='Homebrew gcc 4.9.1' --with-bugurl=https://github.com/Homebrew/homebrew/issues --enable-plugin --disable-nls --enable-multilib
Thread model: posix
gcc version 4.9.1 (Homebrew gcc 4.9.1)
configure:3563: $? = 0
configure:3552: gcc -V >&5
gcc: error: unrecognized command line option '-V'
gcc: fatal error: no input files
compilation terminated.
configure:3563: $? = 1
configure:3552: gcc -qversion >&5
gcc: error: unrecognized command line option '-qversion'
gcc: fatal error: no input files
compilation terminated.
configure:3563: $? = 1
configure:3583: checking whether the C compiler works
configure:3605: gcc conftest.c >&5
dyld: Library not loaded: /usr/local/lib/libisl.10.dylib
Referenced from: /usr/local/Cellar/gcc/4.9.1/libexec/gcc/x86_64-apple-darwin13.2.0/4.9.1/cc1
Reason: image not found
gcc: internal compiler error: Trace/BPT trap: 5 (program cc1)
./configure: line 3607: 9063 Abort trap: 6 $CC $CFLAGS $CPPFLAGS $LDFLAGS conftest.$ac_ext $LIBS 1>&5
I can't see where or why the SCIP Optimization Suite would be using isl. To be precise, in your case not SCIP fails to compile but SoPlex. Have you checked whether you can compile SoPlex alone? Just go into the subdirectory and type make or make SHARED=true GMP=false ZLIB=false to match the original command.
Have you compiled some other code with your compiler? It may also be that your gcc itself is broken.
I have the impression that the C++ compiler itself is broken:
dyld: Library not loaded: /usr/local/lib/libisl.10.dylib
Referenced from: /usr/local/Cellar/gcc/4.9.1/libexec/gcc/x86_64-apple-darwin13.2.0/4.9.1/cc1plus
Maybe try a simple (hello-world) C++ program first to test that the compiler itself is ok.