how about following the advice below and brew install pkg-config libpng
On Mon, 23 Dec 2019, 17:04 David Roe, <roed.m...@gmail.com> wrote: > Hi all, > > I have a new laptop running OS X 10.15 and haven't been able to > successfully build Sage 9.0.beta9 on it. I used Apple's Migration > Assistant to move everything from my old laptop (which was running a much > older version of OS X), so I wouldn't be surprised if there were some > leftover settings that are interfering (my old versions of Sage actually > still run). In particular, I'm confused at why python 2 paths are showing > up below when I thought sage-9.0.beta9 uses python3 by default. Any > suggestions for how to clean out my environment appropriately would be > appreciated. I've reinstalled xcode, the command line tools and a few brew > packages (though I haven't uninstalled+reinstalled Homebrew completely). > > > > The build fails on singular and matplotlib, running with 8 cores (I've > tried previously building with just one core, but didn't on the most recent > attempt). > > > $ make distclean > > $ CC=clang CXX=clang++ FC=gfortran ./configure > > $ MAKE="make -j8" make build > > > I've included the ends of the singular > <http://math.mit.edu/~roed/singular-4.1.1p2.p0.log> and matplotlib > <http://math.mit.edu/~roed/matplotlib-2.2.4.p0.log> logs below, and > posted config.log <http://math.mit.edu/~roed/config.log>. > > > > > /bin/bash ../../../libtool --tag=CXX --mode=link clang++ -std=gnu++11 > -I/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -O2 > -g -pipe -fno-common -g0 -O3 -Wno-unused-function -Wno-trigraphs > -Wno-unused-parameter -Wunknown-pragmas -Wno-unused-variable > -fomit-frame-pointer -fwrapv -fvisibility=default -finline-functions > -fno-exceptions -fno-threadsafe-statics -funroll-loops > -fno-delete-null-pointer-checks -fno-rtti -Qunused-arguments -isysroot > /Developer/SDKs/MacOSX10.6.sdk -isysroot /Developer/SDKs/MacOSX10.6.sdk -g > -F/Library/Frameworks -u _PyMac_Error Python.framework/Versions/2.7/Python > -module -export-dynamic -avoid-version -flat_namespace > -weak_reference_mismatches weak -undefined dynamic_lookup > -L/Users/roed/sage/sage-9.0.beta9/local/lib > -Wl,-rpath,/Users/roed/sage/sage-9.0.beta9/local/lib -pipe -fno-common -g0 > -O3 -Wno-unused-function -Wno-trigraphs -Wno-unused-parameter > -Wunknown-pragmas -Wno-unused-variable -fomit-frame-pointer -fwrapv > -fvisibility=default -finline-functions -fno-exceptions > -fno-threadsafe-statics -funroll-loops -fno-delete-null-pointer-checks > -Qunused-arguments -rdynamic -flat_namespace -Wl,-bind_at_load > -Wl,-undefined,dynamic_lookup -o pyobject.la -rpath > /Users/roed/sage/sage-9.0.beta9/local/libexec/singular/MOD > pyobject_la-pyobject.lo -isysroot /Developer/SDKs/MacOSX10.6.sdk -isysroot > /Developer/SDKs/MacOSX10.6.sdk -g -F/Library/Frameworks -u _PyMac_Error > Python.framework/Versions/2.7/Python -lreadline -lncurses -lmpfr > libtool: link: clang++ -std=gnu++11 -Wl,-undefined -Wl,dynamic_lookup -o > .libs/pyobject.so -bundle .libs/pyobject_la-pyobject.o > -L/Users/roed/sage/sage-9.0.beta9/local/lib -lreadline -lncurses -lmpfr > -O2 -g -g0 -O3 -isysroot /Developer/SDKs/MacOSX10.6.sdk -isysroot > /Developer/SDKs/MacOSX10.6.sdk -g -F/Library/Frameworks -Wl,-rpath > -Wl,/Users/roed/sage/sage-9.0.beta9/local/lib -g0 -O3 -Wl,-bind_at_load > -Wl,-undefined -Wl,dynamic_lookup -isysroot /Developer/SDKs/MacOSX10.6.sdk > -isysroot /Developer/SDKs/MacOSX10.6.sdk -g -F/Library/Frameworks > clang: warning: no such sysroot directory: > '/Developer/SDKs/MacOSX10.6.sdk' [-Wmissing-sysroot] > ld: library not found for -lncurses > clang: error: linker command failed with exit code 1 (use -v to see > invocation) > > > > > BUILDING MATPLOTLIB > matplotlib: yes [2.2.4] > python: yes [3.7.3 (default, Dec 23 2019, 00:02:12) > [Clang > 11.0.0 (clang-1100.0.33.16)]] > platform: yes [darwin] > > REQUIRED DEPENDENCIES AND EXTENSIONS > numpy: yes [version 1.16.1] > install_requires: yes [handled by setuptools] > libagg: yes [pkg-config information for 'libagg' could > not > be found. Using local copy.] > freetype: yes [version 2.9.1] > png: no [The C/C++ header for libpng (png.h) could > not > be found. You may need to install the > development > package.] > qhull: yes [pkg-config information for 'libqhull' > could not > be found. Using local copy.] > > OPTIONAL SUBPACKAGES > sample_data: yes [installing] > toolkits: yes [installing] > > OPTIONAL BACKEND EXTENSIONS > macosx: no [skipping due to configuration] > qt5agg: no [PySide2 not found; PyQt5 not found] > qt4agg: no [PySide not found; PyQt4 not found] > gtk3agg: no [Requires pygobject to be installed.] > gtk3cairo: no [Requires cairocffi or pycairo to be > installed.] > gtkagg: no [skipping due to configuration] > tkagg: yes [installing; run-time loading from Python > Tcl / > Tk] > wxagg: no [skipping due to configuration] > gtk: no [skipping due to configuration] > agg: yes [installing] > cairo: no [cairocffi or pycairo not found] > windowing: no [skipping due to configuration] > > OPTIONAL LATEX DEPENDENCIES > dvipng: yes [version 1.15] > ghostscript: yes [version 9.19] > latex: yes [version 3.14159265] > pdftops: no > > OPTIONAL PACKAGE DATA > dlls: no [skipping due to configuration] > > > ============================================================================ > * The following required packages can not be > built: > * png > * Try installing png with `brew install > libpng` and > * pkg-config with `brew install pkg-config` > Cleaning up... > Removing source in > /private/var/folders/5z/00qw7rqx65qb3n_vn5_2ylxh0000gn/T/pip-req-build-1gyeljlc > Removed > file:///Users/roed/sage/sage-9.0.beta9/local/var/tmp/sage/build/matplotlib-2.2.4.p0/src > from build tracker > '/private/var/folders/5z/00qw7rqx65qb3n_vn5_2ylxh0000gn/T/pip-req-tracker-teeref1m' > Removed build tracker > '/private/var/folders/5z/00qw7rqx65qb3n_vn5_2ylxh0000gn/T/pip-req-tracker-teeref1m' > Command "python setup.py egg_info" failed with error code 1 in > /private/var/folders/5z/00qw7rqx65qb3n_vn5_2ylxh0000gn/T/pip-req-build-1gyeljlc/ > Exception information: > Traceback (most recent call last): > File > "/Users/roed/sage/sage-9.0.beta9/local/lib/python3.7/site-packages/pip/_internal/cli/base_command.py", > line 143, in main > status = self.run(options, args) > File > "/Users/roed/sage/sage-9.0.beta9/local/lib/python3.7/site-packages/pip/_internal/commands/install.py", > line 318, in run > resolver.resolve(requirement_set) > File > "/Users/roed/sage/sage-9.0.beta9/local/lib/python3.7/site-packages/pip/_internal/resolve.py", > line 102, in resolve > self._resolve_one(requirement_set, req) > File > "/Users/roed/sage/sage-9.0.beta9/local/lib/python3.7/site-packages/pip/_internal/resolve.py", > line 256, in _resolve_one > abstract_dist = self._get_abstract_dist_for(req_to_install) > File > "/Users/roed/sage/sage-9.0.beta9/local/lib/python3.7/site-packages/pip/_internal/resolve.py", > line 209, in _get_abstract_dist_for > self.require_hashes > File > "/Users/roed/sage/sage-9.0.beta9/local/lib/python3.7/site-packages/pip/_internal/operations/prepare.py", > line 298, in prepare_linked_requirement > abstract_dist.prep_for_dist(finder, self.build_isolation) > File > "/Users/roed/sage/sage-9.0.beta9/local/lib/python3.7/site-packages/pip/_internal/operations/prepare.py", > line 126, in prep_for_dist > self.req.run_egg_info() > File > "/Users/roed/sage/sage-9.0.beta9/local/lib/python3.7/site-packages/pip/_internal/req/req_install.py", > line 473, in run_egg_info > command_desc='python setup.py egg_info') > File > "/Users/roed/sage/sage-9.0.beta9/local/lib/python3.7/site-packages/pip/_internal/utils/misc.py", > line 705, in call_subprocess > % (command_desc, proc.returncode, cwd)) > pip._internal.exceptions.InstallationError: Command "python setup.py > egg_info" failed with error code 1 in > /private/var/folders/5z/00qw7rqx65qb3n_vn5_2ylxh0000gn/T/pip-req-build-1gyeljlc/ > Error: installing with pip3 failed > > > > Here's some configuration information for my computer: > > > $ sw_vers > > ProductName: Mac OS X > > ProductVersion: 10.15.2 > > BuildVersion: 19C57 > > $ xcodebuild -version > > Xcode 11.3 > > Build version 11C29 > > $ xcode-select --version > > xcode-select version 2373. > > $ brew list > > autoconf gperftools libunistring python@2 > > automake icu4c mpfr readline > > cloc isl nettle sqlite > > emacs libdvdcss ninja sshuttle > > freetype libevent node unbound > > gcc libffi openssl wget > > gdbm libidn2 openssl@1.1 xz > > gettext libmpc p11-kit yasm > > git libpng pcre2 > > gmp libtasn1 postgresql > > gnutls libtool python > > $ env > > TMPDIR=/var/folders/5z/00qw7rqx65qb3n_vn5_2ylxh0000gn/T/ > > XPC_FLAGS=0x0 > > LaunchInstanceID=FA121E45-B0D4-4A9B-AC7B-3DA0BBD3E265 > > TERM=xterm-256color > > LANG=en_US.UTF-8 > > SSH_AUTH_SOCK=/private/tmp/com.apple.launchd.HSZ3ucXzaN/Listeners > > SECURITYSESSIONID=186a8 > > XPC_SERVICE_NAME=0 > > TERM_PROGRAM=Apple_Terminal > > TERM_PROGRAM_VERSION=433 > > TERM_SESSION_ID=AB48F780-8DBD-4585-84FF-E98A2E468EF9 > > SHELL=/bin/zsh > > HOME=/Users/roed > > LOGNAME=roed > > USER=roed > > > PATH=/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/Library/TeX/texbin:/Library/Frameworks/Mono.framework/Versions/Current/Commands > > SHLVL=1 > > PWD=/Users/roed > > OLDPWD=/Users/roed > > EDITOR=emacs > > SAGE_INSTALL_CCACHE=yes > > _=/usr/bin/env > > > Thanks! > > David > > On Sat, Dec 21, 2019 at 10:34 AM Clayton Cafiero <cbcafi...@gmail.com> > wrote: > >> Oh great. Thanks to both. I'll give this a try. >> >> >> >> On Saturday, December 21, 2019 at 10:40:34 AM UTC-5, Clayton Cafiero >> wrote: >>> >>> macOS Catalina 10.15.2 (19C57) >>> >>> Tried downloading and installing binary >>> (sage-8.9-OSX_10.14.6-x86_64.dmg) but when run macOS complained bitterly >>> about every file Sage tried to load when starting with >>> >>> “python2.7” cannot be opened because the developer cannot be verified." >>> >>> >>> If I use System Preferences > Security & Privacy to allow python2.7, >>> then another warning appears: >>> >>> >>> “libpython2.7.dylib” cannot be opened because the developer cannot be >>> verified." >>> >>> >>> ...I had patience for about the first 100 files (_locale.so, zlib.so, >>> _collections.so, blah, blah, blah), then I threw in the towel and tried to >>> build. >>> >>> % xcodebuild -version >>> Xcode 11.2 >>> Build version 11B52 >>> >>> Downloaded Sage 8.9 source from mirror. Followed instructions in >>> README.md, specifically >>> >>> * __OS X:__ >>> * Make sure you have installed the most recent version >>> of Xcode which you can install for free from the App Store. >>> * You also need to install the "command line tools". When >>> using OS X Mavericks, after installing Xcode, run >>> `xcode-select --install` from a terminal window: >>> Then click "Install" in the pop-up window. >>> When using OS X Mountain Lion or earlier, you need to install the >>> command line tools from Xcode: run Xcode; then from the File >>> menu, choose "Preferences", then the "Downloads" tab, and then >>> "Install" the Command Line Tools. You might also have Homebrew or >>> a similar "Apple's missing package manager" system installed, with >>> and libraries such gfortran, gmp, etc installed. (However, this >>> is still experimental as of May 2019). >>> >>> ... >>> >>> Extract the tarball >>> >>> tar zxvf sage-*.tar.gz >>> >>> cd into the Sage directory and type make >>> >>> cd sage-*/ >>> make >>> >>> This ran for quite a while and then failed, informing me to >>> check /Users/myname/Downloads/sage-8.9/logs/pkgs/gfortran-7.4.0.log for >>> more information. This file has over 500k lines and ends with >>> >>> ../../../src/libssp/gets-chk.c:59:13: error: storage class specified for >>> parameter '__chk_fail' >>> extern void __chk_fail (void) __attribute__((__noreturn__)); >>> ^~~~~~~~~~ >>> ../../../src/libssp/gets-chk.c:63:1: error: expected '=', ',', ';', >>> 'asm' or '__attribute__' before '{' token >>> { >>> ^ >>> In file included from >>> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/sys/wait.h:110:0, >>> from >>> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/stdlib.h:66, >>> from ../../../src/libssp/gets-chk.c:39: >>> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/sys/resource.h:447:9: >>> error: old-style parameter declarations in prototyped function definition >>> int getiopolicy_np(int, int) __OSX_AVAILABLE_STARTING(__MAC_10_5, >>> __IPHONE_2_0); >>> ^~~~~~~~~~~~~~ >>> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/sys/resource.h:447:1: >>> error: parameter name omitted >>> int getiopolicy_np(int, int) __OSX_AVAILABLE_STARTING(__MAC_10_5, >>> __IPHONE_2_0); >>> ^~~ >>> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/sys/resource.h:447:1: >>> error: parameter name omitted >>> ../../../src/libssp/gets-chk.c:92:1: error: expected '{' at end of input >>> } >>> ^ >>> ../../../src/libssp/gets-chk.c:92:1: warning: control reaches end of >>> non-void function [-Wreturn-type] >>> } >>> ^ >>> make[7]: *** [gets-chk.lo] Error 1 >>> make[6]: *** [all] Error 2 >>> make[5]: *** [all-target-libssp] Error 2 >>> make[4]: *** [all] Error 2 >>> >>> ************************************************************************************************ >>> Error building gfortran-7.4.0 >>> >>> ************************************************************************************************ >>> >>> Zip of this complete file is attached. >>> >>> Any suggestions? Please advise. TYVVM. >>> >>> >>> >>> >>> -- >> You received this message because you are subscribed to the Google Groups >> "sage-devel" group. >> To unsubscribe from this group and stop receiving emails from it, send an >> email to sage-devel+unsubscr...@googlegroups.com. >> To view this discussion on the web visit >> https://groups.google.com/d/msgid/sage-devel/41b925a3-39f8-43fd-b946-839b81646286%40googlegroups.com >> <https://groups.google.com/d/msgid/sage-devel/41b925a3-39f8-43fd-b946-839b81646286%40googlegroups.com?utm_medium=email&utm_source=footer> >> . >> > -- > You received this message because you are subscribed to the Google Groups > "sage-devel" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to sage-devel+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/sage-devel/CAChs6_mSVv0jVPKdLLjwN3yCX%3DP4dSXKFVMFrCr1D93aWp%2Bmvw%40mail.gmail.com > <https://groups.google.com/d/msgid/sage-devel/CAChs6_mSVv0jVPKdLLjwN3yCX%3DP4dSXKFVMFrCr1D93aWp%2Bmvw%40mail.gmail.com?utm_medium=email&utm_source=footer> > . > -- You received this message because you are subscribed to the Google Groups "sage-devel" group. 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