Package Details: silo 4.11.1-1

Git Clone URL: https://aur.archlinux.org/silo.git (read-only, click to copy)
Package Base: silo
Description: A Mesh and Field I/O Library and Scientific Database
Upstream URL: http://software.llnl.gov/Silo
Licenses: BSD
Submitter: jedbrown
Maintainer: carlosal1015
Last Packager: a.kudelin
Votes: 7
Popularity: 0.000000
First Submitted: 2009-02-13 15:59 (UTC)
Last Updated: 2023-10-21 20:23 (UTC)

Latest Comments

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muon commented on 2016-09-20 16:03 (UTC)

@eolianoe: Thanks for the reply. I have both hdf5 and hdf5_18 installed from the official repos. I just built with a commented out check function, and it built fine.

eolianoe commented on 2016-09-20 11:51 (UTC)

@muon, @MartinDiehl: Which package are you using for hdf5? In order to build the package you can disable the check function and I'll try to investigate more.

muon commented on 2016-09-19 19:59 (UTC)

I just got the same result as @MartinDiehl on x86_64. (silo-4.10.2-5). Output from `makepkg` command: https://gist.github.com/raybsmith/1e4e6a05fb670de385e07b35eb6be50a Let me know if any other info would help.

eolianoe commented on 2016-09-16 16:50 (UTC)

@MartinDiehl: Are you sure, that you have the latest version of the PKGBUILD? Because it seems to be linked to bug reported by smradlev a few months ago and I'm able to build it in a clean i686 chroot.

MartinDiehl commented on 2016-09-16 10:37 (UTC)

For me, the build fails (on i686). It seems that a shell script is processed by the preprocessor In file included from /usr/include/c++/6.2.1/tuple:39:0, from /usr/include/c++/6.2.1/bits/stl_map.h:63, from /usr/include/c++/6.2.1/map:61, from rocket.cxx:66: ./array:1:2: error: invalid preprocessing directive #! #! /bin/sh

eolianoe commented on 2016-08-24 09:09 (UTC)

@fallenrgh: building fine here for now, I will add the `-std=c++98` flags if there is more trouble

fallenrgh commented on 2016-08-23 21:14 (UTC)

Building this package fails for me using the gcc default -std=gnu++14. You get errors like the example from smradlev below. /usr/include/c++/6.1.1/tuple:121:28: error: expected ‘)’ before ‘,’ token _Head_base(allocator_arg_t, __uses_alloc1<_Alloc> __a) Switching to -std=c++98 did the trick for me.

eolianoe commented on 2016-06-13 10:01 (UTC) (edited on 2016-06-13 11:12 (UTC) by eolianoe)

@smradlev: building fine here even in a clean chroot, could give me the full build log by mail? Also next time please do not paste full log in comments and edit your comments to make it easier to read. EDIT: Your build failure seems to come from hdf5-openmpi, added a patch to get it works with it

smradlev commented on 2016-06-13 09:16 (UTC)

I'm getting the following error when trying to build the package. It seems it's trying to compile a sh script file with g++ for some reason. libtool: link: g++ -march=x86-64 -mtune=generic -O2 -pipe -fstack-protector-strong -Wl,-O1 -Wl,--sort-common -Wl,--as-needed -Wl,-z -Wl,relro -o .libs/csg csg.o -L/usr/lib -L/usr/lib/lib ../src/.libs/libsiloh5.so -lhdf5 -lz -lm -lsz g++ -DHAVE_CONFIG_H -I. -I.. -I./../src/silo -I./../src/silo -I/usr/include -I/usr/include -D_FORTIFY_SOURCE=2 -I/usr/include -rdynamic -march=x86-64 -mtune=generic -O2 -pipe -fstack-protector-strong -MT rocket-rocket.o -MD -MP -MF .deps/rocket-rocket.Tpo -c -o rocket-rocket.o `test -f 'rocket.cxx' || echo './'`rocket.cxx rocket.cxx:55:2: warning: #warning MAKE THIS CONDITIONAL LATER [-Wcpp] #warning MAKE THIS CONDITIONAL LATER ^~~~~~~ In file included from /usr/include/c++/6.1.1/tuple:39:0, from /usr/include/c++/6.1.1/bits/stl_map.h:63, from /usr/include/c++/6.1.1/map:61, from rocket.cxx:66: ./array:1:2: error: invalid preprocessing directive #! #! /bin/sh ^ ./array:3:3: error: invalid preprocessing directive #array # array - temporary wrapper script for .libs/array ^~~~~ ./array:4:3: error: invalid preprocessing directive #Generated # Generated by ltmain.sh (GNU libtool) 2.2.6b ^~~~~~~~~ ./array:6:3: error: invalid preprocessing directive #The # The array program cannot be directly executed until all the libtool ^~~ ./array:7:3: error: invalid preprocessing directive #libraries # libraries that it depends on are installed. ^~~~~~~~~ ./array:9:3: error: invalid preprocessing directive #This # This wrapper script should never be moved out of the build directory. ^~~~ ./array:10:3: error: invalid preprocessing directive #If # If it is, it will not operate correctly. ^~ ./array:12:3: error: invalid preprocessing directive #Sed # Sed substitution that helps us do robust quoting. It backslashifies ^~~ ./array:13:3: error: invalid preprocessing directive #metacharacters # metacharacters that are still active within double-quoted strings. ^~~~~~~~~~~~~~ ./array:17:3: error: invalid preprocessing directive #Be # Be Bourne compatible ^~ ./array:21:5: error: invalid preprocessing directive #Zsh # Zsh 3.x and 4.x performs word splitting on ${1+"$@"}, which ^~~ ./array:22:5: error: invalid preprocessing directive #is # is contrary to our usage. Disable this feature. ^~ ./array:26:8: error: stray ‘`’ in program case `(set -o) 2>/dev/null` in *posix*) set -o posix;; esac ^ ./array:26:29: error: stray ‘`’ in program case `(set -o) 2>/dev/null` in *posix*) set -o posix;; esac ^ ./array:28:28: error: stray ‘#’ in program BIN_SH=xpg4; export BIN_SH # for Tru64 ^ ./array:29:29: error: stray ‘#’ in program DUALCASE=1; export DUALCASE # for MKS sh ^ ./array:31:3: error: invalid preprocessing directive #The # The HP-UX ksh and POSIX shell print the target directory to stdout ^~~ ./array:32:13: error: missing binary operator before token "is" # if CDPATH is set. ^~ ./array:32:0: error: unterminated #if # if CDPATH is set. In file included from /usr/include/c++/6.1.1/tuple:39:0, from /usr/include/c++/6.1.1/bits/stl_map.h:63, from /usr/include/c++/6.1.1/map:61, from rocket.cxx:66: ./array:14:1: error: ‘Xsed’ does not name a type Xsed='/usr/bin/sed -e 1s/^X//' ^~~~ ./array:18:66: error: ‘then’ does not name a type if test -n "${ZSH_VERSION+set}" && (emulate sh) >/dev/null 2>&1; then ^~~~ ./array:26:58: error: ‘esac’ does not name a type case `(set -o) 2>/dev/null` in *posix*) set -o posix;; esac ^~~~ ./array:28:21: error: ‘BIN_SH’ does not name a type BIN_SH=xpg4; export BIN_SH # for Tru64 ^~~~~~ ./array:29:20: error: ‘DUALCASE’ does not name a type DUALCASE=1; export DUALCASE # for MKS sh ^~~~~~~~ In file included from /usr/include/c++/6.1.1/bits/stl_map.h:63:0, from /usr/include/c++/6.1.1/map:61, from rocket.cxx:66: /usr/include/c++/6.1.1/tuple:71:33: error: expected ‘)’ before ‘,’ token _Head_base(allocator_arg_t, __uses_alloc0) ^ /usr/include/c++/6.1.1/tuple:75:28: error: expected ‘)’ before ‘,’ token _Head_base(allocator_arg_t, __uses_alloc1<_Alloc> __a) ^ /usr/include/c++/6.1.1/tuple:79:28: error: expected ‘)’ before ‘,’ token _Head_base(allocator_arg_t, __uses_alloc2<_Alloc> __a) ^ /usr/include/c++/6.1.1/tuple:83:26: error: expected ‘)’ before ‘,’ token _Head_base(__uses_alloc0, _UHead&& __uhead) ^ /usr/include/c++/6.1.1/tuple:87:26: error: expected ‘)’ before ‘<’ token _Head_base(__uses_alloc1<_Alloc> __a, _UHead&& __uhead) ^ /usr/include/c++/6.1.1/tuple:91:26: error: expected ‘)’ before ‘<’ token _Head_base(__uses_alloc2<_Alloc> __a, _UHead&& __uhead) ^ /usr/include/c++/6.1.1/tuple:117:33: error: expected ‘)’ before ‘,’ token _Head_base(allocator_arg_t, __uses_alloc0) ^ /usr/include/c++/6.1.1/tuple:121:28: error: expected ‘)’ before ‘,’ token _Head_base(allocator_arg_t, __uses_alloc1<_Alloc> __a) ^ /usr/include/c++/6.1.1/tuple:125:28: error: expected ‘)’ before ‘,’ token _Head_base(allocator_arg_t, __uses_alloc2<_Alloc> __a) ^ /usr/include/c++/6.1.1/tuple:129:26: error: expected ‘)’ before ‘,’ token _Head_base(__uses_alloc0, _UHead&& __uhead) ^ /usr/include/c++/6.1.1/tuple:133:26: error: expected ‘)’ before ‘<’ token _Head_base(__uses_alloc1<_Alloc> __a, _UHead&& __uhead) ^ /usr/include/c++/6.1.1/tuple:138:26: error: expected ‘)’ before ‘<’ token _Head_base(__uses_alloc2<_Alloc> __a, _UHead&& __uhead) ^ /usr/include/c++/6.1.1/tuple:237:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a) ^~~~~ /usr/include/c++/6.1.1/tuple:242:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:250:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:257:37: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:263:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:270:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:278:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:380:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a) ^~~~~ /usr/include/c++/6.1.1/tuple:384:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:389:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:395:37: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:400:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:406:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:412:30: error: expected ‘)’ before ‘__tag’ _Tuple_impl(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:711:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a) ^~~~~ /usr/include/c++/6.1.1/tuple:721:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:732:33: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:742:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:753:33: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:759:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, const tuple& __in) ^~~~~ /usr/include/c++/6.1.1/tuple:763:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, tuple&& __in) ^~~~~ /usr/include/c++/6.1.1/tuple:772:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:784:33: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:796:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:808:33: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:1021:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a) ^~~~~ /usr/include/c++/6.1.1/tuple:1032:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:1044:33: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:1054:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, _U1&& __a1, _U2&& __a2) ^~~~~ /usr/include/c++/6.1.1/tuple:1064:33: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:1070:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, const tuple& __in) ^~~~~ /usr/include/c++/6.1.1/tuple:1074:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, tuple&& __in) ^~~~~ /usr/include/c++/6.1.1/tuple:1083:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:1095:33: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:1107:24: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, tuple<_U1, _U2>&& __in) ^~~~~ /usr/include/c++/6.1.1/tuple:1117:33: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:1128:31: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:1138:40: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ /usr/include/c++/6.1.1/tuple:1148:31: error: expected ‘)’ before ‘__tag’ tuple(allocator_arg_t __tag, const _Alloc& __a, pair<_U1, _U2>&& __in) ^~~~~ /usr/include/c++/6.1.1/tuple:1158:40: error: expected ‘)’ before ‘__tag’ explicit tuple(allocator_arg_t __tag, const _Alloc& __a, ^~~~~ rocket.cxx:155:1: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] }; ^ rocket.cxx:155:1: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] rocket.cxx:155:1: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] rocket.cxx:155:1: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] rocket.cxx:155:1: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] rocket.cxx: In function ‘int WriteAllFormats(int, char**)’: rocket.cxx:744:57: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] char *dirs[] = {".", "../..", ".libs", "../../.libs"}; ^ rocket.cxx:744:57: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] rocket.cxx:744:57: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] rocket.cxx:744:57: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] make[1]: *** [Makefile:1623: rocket-rocket.o] Error 1 make[1]: Leaving directory '/home/user/Build/silo/src/silo-4.10.2/tests' make: *** [Makefile:1777: check-am] Error 2 ==> ERROR: A failure occurred in check(). Aborting...

ftschindler commented on 2016-01-28 22:04 (UTC)

Building this package fails with the following error: ``` libtool: link: g++ -march=x86-64 -mtune=generic -O2 -pipe -fstack-protector-strong -fstack-check -Wl,-O1 -Wl,--sort-common -Wl,--as-needed -Wl,-z -Wl,relro -o .libs/silock silock.o -L/usr/lib -L/usr/lib/lib ../../src/.libs/libsiloh5.so -lhdf5 -lz -lm -lsz ../../src/.libs/libsiloh5.so: undefined reference to `H5Pset_fapl_mpiposix' collect2: error: ld returned 1 exit status Makefile:403: recipe for target 'silock' failed ``` This is not surprising, see e.g.: http://hdf-forum.184993.n3.nabble.com/Re-undefined-reference-to-H5Pset-fapl-mpiposix-td4027216.html Disabling the `hdf5` dependency seems to work for me.

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