Dependencies
Closed this issue · 4 comments
Hi again,
as you mentioned in the last comment of #60, I create a separate issue for the problem of dependencies. The problem persists (actually, I see no update of the configure.ac since that). Now I tested it also in a new Ubuntu 20.04 virtual machine, i.e. no mess from other previously installed programs (Ubuntu 16 is quite old, it is even out of standard support).
Unfortunately, I am not experienced with autoconf, so I am not able to suggest a fix of configure.ac. Maybe the easiest way to trade with it would be to add a section to chapter Compatibility and dependencies in README or create a new chapter containing pairs of error - solution.
user@machine:path/freesasa$ make
...
g++ -std=gnu++14 -g -O2 -o freesasa main.o cif.o -lc++ libfreesasa.a -lxml2 -lpthread -ldl -lm
/usr/bin/ld: cannot find -lc++
collect2: error: ld returned 1 exit status
make[2]: *** [Makefile:513: freesasa] Error 1
make[2]: Leaving directory '/home/j/freesasa/src'
make[1]: *** [Makefile:382: all-recursive] Error 1
make[1]: Leaving directory '/home/j/freesasa'
make: *** [Makefile:321: all] Error 2
Solution: install libc++-11-dev, i.e. call apt-get install libc++-11-dev; if the package is not available, call apt-get update update first.
user@machine:path/freesasa$ make
...
g++ -std=gnu++14 -g -O2 -o freesasa main.o cif.o -lc++ libfreesasa.a -lxml2 -lpthread -ldl -lm
/usr/bin/ld: cannot find -lc++abi
collect2: error: ld returned 1 exit status
make[2]: *** [Makefile:513: freesasa] Error 1
make[2]: Leaving directory '/home/j/freesasa/src'
make[1]: *** [Makefile:382: all-recursive] Error 1
make[1]: Leaving directory '/home/j/freesasa'
make: *** [Makefile:321: all] Error 2
Solution: install libc++abi-11-dev, i.e. call apt-get install libc++abi-11-dev; if the package is not available, call apt-get update update first.
user@machine:path/freesasa$ ./configure
...
config.status: executing depfiles commands
config.status: error: in `/home/j/freesasa':
config.status: error: Something went wrong bootstrapping makefile fragments
for automatic dependency tracking. Try re-running configure with the
'--disable-dependency-tracking' option to at least be able to build
the package (albeit without support for automatic dependency tracking).
See `config.log' for more details
Solution: the recommended --disable-dependency-tracking does not solve it (resp. it would pass ./configure step, but then it would fail during make step), the problem is missing make, i.e. call apt-get install make (or you can install build-essential instead, it contains also a compiler - see a later problem).
user@machine:path/freesasa$ ./configure
...
checking for libxml2... no
configure: error: Library libxml2 not found, install library or build without (using --disable-xml).
Solution: the problem is not missing libxml2 package, but missing libxml2-dev package, i.e. call apt-get install libxml2-dev.
The rest of prerequisites is quite obvious:
user@machine:path/freesasa$ ./configure
...
checking for gcc... no
checking for cc... no
checking for cl.exe... no
configure: error: in `/home/j/freesasa':
configure: error: no acceptable C compiler found in $PATH
See `config.log' for more details
Solution: missing C compiler, e.g. call apt-get install build-essential (see an upper problem).
user@machine:path/freesasa$ autoreconf -i
Command 'autoreconf' not found, but can be installed with:
sudo apt install autoconf
Solution: do what it recommends (or apt-get install autoconf, if you prefer apt-get).
Hi,
I think documenting what's needed is not a bad idea! Especially until we figure out how to handle this in with autoconf. I simplified things a little in #69, what do you think?
It seems I get by by using libc++-dev and libc++abi-dev btw. (without "11")
Hi,
ok... actually, maybe also git should be added (I forgot that it is not only for optional git clone, but also for git submodule init and git submodule update).
Yes, I guess that would be necessary for completeness, I updated the PR. I guess something similar for Mac OS X and Yum-based linux distros would be appropriate too. But that can be a separate issue.
I have merged the changes to master. Thanks for your suggestions!