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NCAR / lrose-core

Core C/C++ code for LROSE.
https://www.eol.ucar.edu/content/lidar-radar-open-software-environment
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LROSE Install on Mac OS Catalina 10.15.7: Installation Help!...Running out of ideas...Clang problem? #91

Closed kakosiba closed 1 year ago

kakosiba commented 3 years ago

Hi All,

I have been trying to install LROSE on MAC_OX Catalina to no avail...using 2 different methods...(and I am pretty sure I have all the dependencies installed)

Method 1. Tried installing via "brew install lrose.rb"

A. Similar to #90, I had an issue with ":x11 is depriciated!"...so I just replaced 'X11' with 'libx11' and it seemed to move past that issue (at least for now). But, I now get the following (I didn't copy and past everything, but I highlighted what I think might be most relevant and I don't know how to fix):

Error: Failed to load cask: lrose-core.rb Cask 'lrose-core' is unreadable: wrong constant name #**** Warning: Treating lrose-core.rb as a formula. ==> Downloading https://github.com/NCAR/lrose-core/releases/download/lrose-core-20200701/lrose-core-20200719.src.mac_osx.tgz Already downloaded: /Users/karenakosiba/Library/Caches/Homebrew/downloads/305606d0fc2ec4100e589eaf0aeac05067c7fc37e4b8fca063d998220fd42e76--lrose-core-20200719.src.mac_osx.tgz ==> ./configure --prefix=/usr/local/Cellar/lrose-core/core-20200719 ==> make install Last 15 lines from /Users/karenakosiba/Library/Logs/Homebrew/lrose-core/02.make:

(Note: skipped copy all the lines and lines of paths...could be something in there, but didn't look like it)

ld: library not found for -lnetcdf clang: error: linker command failed with exit code 1 (use -v to see invocation) make[4]: [tdrp_gen] Error 1 make[3]: [install-recursive] Error 1 make[2]: [install-recursive] Error 1 make[1]: [install-recursive] Error 1 make: *** [install-recursive] Error 1

Do not report this issue to Homebrew/brew or Homebrew/core!

Traceback (most recent call last): 22: from /usr/local/Homebrew/Library/Homebrew/build.rb:227:in <main>' 21: from /usr/local/Homebrew/Library/Homebrew/build.rb:134:ininstall' 20: from /usr/local/Homebrew/Library/Homebrew/utils.rb:532:in with_env' 19: from /usr/local/Homebrew/Library/Homebrew/build.rb:139:inblock in install' 18: from /usr/local/Homebrew/Library/Homebrew/formula.rb:1216:in brew' 17: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2237:instage' 16: from /usr/local/Homebrew/Library/Homebrew/vendor/portable-ruby/2.6.3_2/lib/ruby/2.6.0/forwardable.rb:230:in stage' 15: from /usr/local/Homebrew/Library/Homebrew/resource.rb:91:instage' 14: from /usr/local/Homebrew/Library/Homebrew/resource.rb:116:in unpack' 13: from /usr/local/Homebrew/Library/Homebrew/resource.rb:197:inmktemp' 12: from /usr/local/Homebrew/Library/Homebrew/mktemp.rb:63:in run' 11: from /usr/local/Homebrew/Library/Homebrew/mktemp.rb:63:inchdir' 10: from /usr/local/Homebrew/Library/Homebrew/mktemp.rb:63:in block in run' 9: from /usr/local/Homebrew/Library/Homebrew/resource.rb:121:inblock in unpack' 8: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2257:in block in stage' 7: from /usr/local/Homebrew/Library/Homebrew/utils.rb:532:inwith_env' 6: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2258:in block (2 levels) in stage' 5: from /usr/local/Homebrew/Library/Homebrew/formula.rb:1223:inblock in brew' 4: from /usr/local/Homebrew/Library/Homebrew/build.rb:175:in block (2 levels) in install' 3: from /Users/karenakosiba/Downloads/lrose-core.rb:33:ininstall' 2: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2044:in system' 1: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2044:inopen' /usr/local/Homebrew/Library/Homebrew/formula.rb:2108:in block in system': Failed executing: make install (BuildError) 5: from /usr/local/Homebrew/Library/Homebrew/brew.rb:155:in

' 4: from /usr/local/Homebrew/Library/Homebrew/brew.rb:167:in rescue in <main>' 3: from /usr/local/Homebrew/Library/Homebrew/exceptions.rb:475:indump' 2: from /usr/local/Homebrew/Library/Homebrew/exceptions.rb:421:in issues' 1: from /usr/local/Homebrew/Library/Homebrew/exceptions.rb:425:infetch_issues' /usr/local/Homebrew/Library/Homebrew/utils/github.rb:321:in issues_for_formula': undefined methodfull_name' for nil:NilClass (NoMethodError)

Method 2. I tried to build from the source directly...at the "make install" step in ~/git/lrose-core/codebase/libs/tdrp/src, I get the following error...even though stdio.h exists:

    /bin/mkdir -p /Users/karenakosiba/lrose/include/tdrp; fi

if /bin/test -d include/tdrp; then \ /bin/cp -rf include/tdrp /Users/karenakosiba/lrose/include; else \ /bin/cp -rf include/*h /Users/karenakosiba/lrose/include; fi if /bin/test -d /Users/karenakosiba/lrose/lib; then :; else \ /bin/mkdir -p /Users/karenakosiba/lrose/lib; fi /Applications/Xcode.app/Contents/Developer/usr/bin/make tdrp TARGET=all if /bin/test -d tdrp; then cd tdrp; /Applications/Xcode.app/Contents/Developer/usr/bin/make all; fi ; /Applications/Xcode.app/Contents/Developer/usr/bin/make _CC="gcc" _CPPC="g++" _FC="gfortran" _F90C="gfortran" \ _F95C="gfortran" \ DBUG_OPT_FLAGS="-O2" target echo Making library module ... Making library module ... /Applications/Xcode.app/Contents/Developer/usr/bin/make _CC="gcc" _CPPC="g++" _F90C="gfortran" DBUG_OPT_FLAGS="-O2" DEBUG_CFLAGS="" DEBUG_LIBS="" DEBUG_LDFLAGS="" SYS_LIBS="" SYS_CFLAGS=" -DOSX_LROSE -D_BSD_TYPES -DF_UNDERSCORE2 " lib gcc -DOSX_LROSE -D_BSD_TYPES -DF_UNDERSCORE2 -O2 -c -I../include -I/Users/karenakosiba/lrose/include check.c gcc: warning: couldn’t understand kern.osversion ‘19.6.0 In file included from check.c:35:0: **../include/tdrp/tdrp.h:32:19: fatal error: stdio.h: No such file or directory

include 

               ^

compilation terminated. make[4]: ** [check.o] Error 1 make[3]: [target] Error 2 make[2]: [opt] Error 2 make[1]: [tdrp] Error 2 make: *** [all] Error 2

Help :)!! Thanks!!

Best. Karen

P.S. More than happy to tar up the Log files and send.

ScottGunter commented 3 years ago

Any resolution on this? Same MacOS and similar errors here, except I am using the 20210312 version. Thanks!

gewitterblitz commented 3 years ago

I have been unsuccessful in my attempts to install lrose with same OS configuration. Here are the steps I followed for installation:

Downloaded lrose-core.rb from the latest release and used homebrew (brew install lrose-core.rb). Here's the error message:

==> Downloading https://github.com/NCAR/lrose-core/releases/download/lrose-core-20210524/lrose-core-20210524.s
Already downloaded: /Users/ms/Library/Caches/Homebrew/downloads/596cd8f5869dd818fdd0524322d0b020c0dec5520f95175deed1e6cdd65dba5e--lrose-core-20210524.src.tgz
==> cmake ..
==> make -j 8 install
==> make -j 8 install
==> make -j 8 install
Last 15 lines from /Users/ms/Library/Logs/Homebrew/lrose-core/04.make:
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:327:9: error: no member named 'islessgreater' in the global namespace
using ::islessgreater;
      ~~^
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:328:9: error: no member named 'isunordered' in the global namespace
using ::isunordered;
      ~~^
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:329:9: error: no member named 'isunordered' in the global namespace
using ::isunordered;
      ~~^
[  1%] Building CXX object libs/Mdv/src/CMakeFiles/Mdv.dir/DsMdvx/msg_assemble.cc.o
13 errors generated.
make[2]: *** [libs/Mdv/src/CMakeFiles/Mdv.dir/ClimoStatCalc/StdDevStatCalc.cc.o] Error 1
make[2]: *** Waiting for unfinished jobs....
make[1]: *** [libs/Mdv/src/CMakeFiles/Mdv.dir/all] Error 2
make: *** [all] Error 2

Do not report this issue to Homebrew/brew or Homebrew/core!

Traceback (most recent call last):
    28: from /usr/local/Homebrew/Library/Homebrew/build.rb:229:in `<main>'
    27: from /usr/local/Homebrew/Library/Homebrew/build.rb:133:in `install'
    26: from /usr/local/Homebrew/Library/Homebrew/utils.rb:550:in `with_env'
    25: from /usr/local/Homebrew/Library/Homebrew/build.rb:138:in `block in install'
    24: from /usr/local/Homebrew/Library/Homebrew/formula.rb:1274:in `brew'
    23: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2394:in `stage'
    22: from /usr/local/Homebrew/Library/Homebrew/vendor/portable-ruby/2.6.3_2/lib/ruby/2.6.0/forwardable.rb:230:in `stage'
    21: from /usr/local/Homebrew/Library/Homebrew/resource.rb:91:in `stage'
    20: from /usr/local/Homebrew/Library/Homebrew/resource.rb:116:in `unpack'
    19: from /usr/local/Homebrew/Library/Homebrew/resource.rb:199:in `mktemp'
    18: from /usr/local/Homebrew/Library/Homebrew/mktemp.rb:63:in `run'
    17: from /usr/local/Homebrew/Library/Homebrew/mktemp.rb:63:in `chdir'
    16: from /usr/local/Homebrew/Library/Homebrew/mktemp.rb:63:in `block in run'
    15: from /usr/local/Homebrew/Library/Homebrew/resource.rb:117:in `block in unpack'
    14: from /usr/local/Homebrew/Library/Homebrew/download_strategy.rb:102:in `stage'
    13: from /usr/local/Homebrew/Library/Homebrew/download_strategy.rb:115:in `chdir'
    12: from /usr/local/Homebrew/Library/Homebrew/download_strategy.rb:115:in `chdir'
    11: from /usr/local/Homebrew/Library/Homebrew/resource.rb:121:in `block (2 levels) in unpack'
    10: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2414:in `block in stage'
     9: from /usr/local/Homebrew/Library/Homebrew/utils.rb:550:in `with_env'
     8: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2415:in `block (2 levels) in stage'
     7: from /usr/local/Homebrew/Library/Homebrew/formula.rb:1281:in `block in brew'
     6: from /usr/local/Homebrew/Library/Homebrew/build.rb:178:in `block (2 levels) in install'
     5: from /Users/ms/Documents/LROSE_core_brew/lrose-core.rb:35:in `install'
     4: from /Users/ms/Documents/LROSE_core_brew/lrose-core.rb:35:in `chdir'
     3: from /Users/ms/Documents/LROSE_core_brew/lrose-core.rb:47:in `block in install'
     2: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2185:in `system'
     1: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2185:in `open'
/usr/local/Homebrew/Library/Homebrew/formula.rb:2249:in `block in system': Failed executing: make -j 8 install (BuildError)
    5: from /usr/local/Homebrew/Library/Homebrew/brew.rb:155:in `<main>'
    4: from /usr/local/Homebrew/Library/Homebrew/brew.rb:167:in `rescue in <main>'
    3: from /usr/local/Homebrew/Library/Homebrew/exceptions.rb:509:in `dump'
    2: from /usr/local/Homebrew/Library/Homebrew/exceptions.rb:455:in `issues'
    1: from /usr/local/Homebrew/Library/Homebrew/exceptions.rb:459:in `fetch_issues'
/usr/local/Homebrew/Library/Homebrew/utils/github.rb:60:in `issues_for_formula': undefined method `full_name' for nil:NilClass (NoMethodError)

Also tried the previous release but similar error message:

Already downloaded: /Users/ms/Library/Caches/Homebrew/downloads/5b7c43b5e5ac740d407ac3e0ddcbd4c093fccf9e66a6248d5d325c0ead15a217--lrose-core-20210312.src.tgz
/Users/ms/Documents/LROSE_core_brew/lrose-core.rb:33: warning: conflicting chdir during another chdir block
/Users/ms/Documents/LROSE_core_brew/lrose-core.rb:35: warning: conflicting chdir during another chdir block
==> cmake ..
==> make -j 8 install
Last 15 lines from /Users/ms/Library/Logs/Homebrew/lrose-core/02.make:
In file included from /tmp/lrose-core-20210726-83728-1he0vpi/lrose-core-20210312.src/codebase/libs/Mdv/src/ClimoStatCalc/StdDevStatCalc.cc:39:
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:327:9: error: no member named 'islessgreater' in the global namespace
using ::islessgreater;
      ~~^
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:328:9: error: no member named 'isunordered' in the global namespace
using ::isunordered;
      ~~^
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1/cmath:329:9: error: no member named 'isunordered' in the global namespace
using ::isunordered;
      ~~^
13 errors generated.
make[2]: *** [libs/Mdv/src/CMakeFiles/Mdv.dir/ClimoStatCalc/StdDevStatCalc.cc.o] Error 1
make[2]: *** Waiting for unfinished jobs....
make[1]: *** [libs/Mdv/src/CMakeFiles/Mdv.dir/all] Error 2
make: *** [all] Error 2

Do not report this issue to Homebrew/brew or Homebrew/core!

Traceback (most recent call last):
    26: from /usr/local/Homebrew/Library/Homebrew/build.rb:229:in `<main>'
    25: from /usr/local/Homebrew/Library/Homebrew/build.rb:133:in `install'
    24: from /usr/local/Homebrew/Library/Homebrew/utils.rb:550:in `with_env'
    23: from /usr/local/Homebrew/Library/Homebrew/build.rb:138:in `block in install'
    22: from /usr/local/Homebrew/Library/Homebrew/formula.rb:1274:in `brew'
    21: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2394:in `stage'
    20: from /usr/local/Homebrew/Library/Homebrew/vendor/portable-ruby/2.6.3_2/lib/ruby/2.6.0/forwardable.rb:230:in `stage'
    19: from /usr/local/Homebrew/Library/Homebrew/resource.rb:91:in `stage'
    18: from /usr/local/Homebrew/Library/Homebrew/resource.rb:116:in `unpack'
    17: from /usr/local/Homebrew/Library/Homebrew/resource.rb:199:in `mktemp'
    16: from /usr/local/Homebrew/Library/Homebrew/mktemp.rb:63:in `run'
    15: from /usr/local/Homebrew/Library/Homebrew/mktemp.rb:63:in `chdir'
    14: from /usr/local/Homebrew/Library/Homebrew/mktemp.rb:63:in `block in run'
    13: from /usr/local/Homebrew/Library/Homebrew/resource.rb:117:in `block in unpack'
    12: from /usr/local/Homebrew/Library/Homebrew/download_strategy.rb:102:in `stage'
    11: from /usr/local/Homebrew/Library/Homebrew/download_strategy.rb:115:in `chdir'
    10: from /usr/local/Homebrew/Library/Homebrew/download_strategy.rb:115:in `chdir'
     9: from /usr/local/Homebrew/Library/Homebrew/resource.rb:121:in `block (2 levels) in unpack'
     8: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2414:in `block in stage'
     7: from /usr/local/Homebrew/Library/Homebrew/utils.rb:550:in `with_env'
     6: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2415:in `block (2 levels) in stage'
     5: from /usr/local/Homebrew/Library/Homebrew/formula.rb:1281:in `block in brew'
     4: from /usr/local/Homebrew/Library/Homebrew/build.rb:178:in `block (2 levels) in install'
     3: from /Users/ms/Documents/LROSE_core_brew/lrose-core.rb:37:in `install'
     2: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2185:in `system'
     1: from /usr/local/Homebrew/Library/Homebrew/formula.rb:2185:in `open'
/usr/local/Homebrew/Library/Homebrew/formula.rb:2249:in `block in system': Failed executing: make -j 8 install (BuildError)
    5: from /usr/local/Homebrew/Library/Homebrew/brew.rb:155:in `<main>'
    4: from /usr/local/Homebrew/Library/Homebrew/brew.rb:167:in `rescue in <main>'
    3: from /usr/local/Homebrew/Library/Homebrew/exceptions.rb:509:in `dump'
    2: from /usr/local/Homebrew/Library/Homebrew/exceptions.rb:455:in `issues'
    1: from /usr/local/Homebrew/Library/Homebrew/exceptions.rb:459:in `fetch_issues'
/usr/local/Homebrew/Library/Homebrew/utils/github.rb:60:in `issues_for_formula': undefined method `full_name' for nil:NilClass (NoMethodError)

Googling the error message led me to this thread which suggests deleting the xcode command line tools but once I do that and try brew install lrose-core.rb, I get this error:

Error: Failed to load cask: lrose-core.rb
Cask 'lrose-core' is unreadable: wrong constant name #<Class:0x00007f91b54b99b8>
Warning: Treating lrose-core.rb as a formula.
==> Downloading https://github.com/NCAR/lrose-core/releases/download/lrose-core-20210524/lrose-core-20210524.s
Already downloaded: /Users/ms/Library/Caches/Homebrew/downloads/596cd8f5869dd818fdd0524322d0b020c0dec5520f95175deed1e6cdd65dba5e--lrose-core-20210524.src.tgz
Error: Xcode alone is not sufficient on Catalina.
Install the Command Line Tools:
  xcode-select --install

Has anyone else encountered this problem? If yes, then how did you resolve it?

gewitterblitz commented 2 years ago

In case anyone is still stuck and interested in the solution, I have posted a workaround here: http://forum.lrose.net/t/installing-lrose-on-macos-catalina/56

mike-dixon commented 1 year ago

Catalina is no longer supported by lrose.