Converts Consistent Tree Output into LHaloTree format.
License: MIT License
Different CTrees versions output different columns (after column 34 from my read). Might require a more generic approach matching the fields to the values.
The correction for multiple z=0 FOF roots in fix_flybys means that there is no way to know if a halo had a flyby. Can be easily accommodated by flipping a bit - signalling that even though the halo appears to be a subhalo at z=0, that halo was identified as an isolated host by rockstar/consistent-trees.
@darrencroton got this output while compiling. Two issues:
gcc is clang but the Makefile should pick that up (and not use the -Wa,-q flag needed to use the clang assembler for true gcc)gcc -DUSE_STRINGPARSE -ggdb -Wsign-compare -Wall -Wextra -Wshadow -Wunused -std=c99 -g -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE -D_POSIX_SOURCE -D_POSIX_C_SOURCE=200809L -D_SVID_SOURCE -D_DARWIN_C_SOURCE -O3 -Ofast -ftree-vectorize -flto -funroll-loops -march=native -fno-strict-aliasing -Wformat=2 -Wpacked -Wnested-externs -Wpointer-arith -Wredundant-decls -Wfloat-equal -Wcast-align -Wnested-externs -Wstrict-prototypes -Wa,-q -c main.c -o main.o
clang: warning: argument unused during compilation: '-Wa,-q' [-Wunused-command-line-argument]
gcc -DUSE_STRINGPARSE -ggdb -Wsign-compare -Wall -Wextra -Wshadow -Wunused -std=c99 -g -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE -D_POSIX_SOURCE -D_POSIX_C_SOURCE=200809L -D_SVID_SOURCE -D_DARWIN_C_SOURCE -O3 -Ofast -ftree-vectorize -flto -funroll-loops -march=native -fno-strict-aliasing -Wformat=2 -Wpacked -Wnested-externs -Wpointer-arith -Wredundant-decls -Wfloat-equal -Wcast-align -Wnested-externs -Wstrict-prototypes -Wa,-q -c convert_trees_to_lhalo.c -o convert_trees_to_lhalo.o
clang: warning: argument unused during compilation: '-Wa,-q' [-Wunused-command-line-argument]
convert_trees_to_lhalo.c:899:30: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
if((info[i].upid == fof_id) ) {
~~~~~~~~~~~~~^~~~~~~~~
convert_trees_to_lhalo.c:899:30: note: remove extraneous parentheses around the comparison to silence this warning
if((info[i].upid == fof_id) ) {
~ ^ ~
convert_trees_to_lhalo.c:899:30: note: use '=' to turn this equality comparison into an assignment
if((info[i].upid == fof_id) ) {
^~
=
1 warning generated.
gcc -DUSE_STRINGPARSE -ggdb -Wsign-compare -Wall -Wextra -Wshadow -Wunused -std=c99 -g -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE -D_POSIX_SOURCE -D_POSIX_C_SOURCE=200809L -D_SVID_SOURCE -D_DARWIN_C_SOURCE -O3 -Ofast -ftree-vectorize -flto -funroll-loops -march=native -fno-strict-aliasing -Wformat=2 -Wpacked -Wnested-externs -Wpointer-arith -Wredundant-decls -Wfloat-equal -Wcast-align -Wnested-externs -Wstrict-prototypes -Wa,-q -c utils.c -o utils.o
clang: warning: argument unused during compilation: '-Wa,-q' [-Wunused-command-line-argument]
utils.c:159:62: warning: format specifies type 'size_t' (aka 'unsigned long') but the argument has type 'int64_t' (aka 'long long')
[-Wformat]
fprintf(stderr,"Could not write %zu bytes\n",bytes_read);
~~~ ^~~~~~~~~~
%lld
1 warning generated.
gcc -DUSE_STRINGPARSE -ggdb -Wsign-compare -Wall -Wextra -Wshadow -Wunused -std=c99 -g -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE -D_POSIX_SOURCE -D_POSIX_C_SOURCE=200809L -D_SVID_SOURCE -D_DARWIN_C_SOURCE -O3 -Ofast -ftree-vectorize -flto -funroll-loops -march=native -fno-strict-aliasing -Wformat=2 -Wpacked -Wnested-externs -Wpointer-arith -Wredundant-decls -Wfloat-equal -Wcast-align -Wnested-externs -Wstrict-prototypes -Wa,-q -c progressbar.c -o progressbar.o
clang: warning: argument unused during compilation: '-Wa,-q' [-Wunused-command-line-argument]
gcc -DUSE_STRINGPARSE -ggdb -Wsign-compare -Wall -Wextra -Wshadow -Wunused -std=c99 -g -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE -D_POSIX_SOURCE -D_POSIX_C_SOURCE=200809L -D_SVID_SOURCE -D_DARWIN_C_SOURCE -O3 -Ofast -ftree-vectorize -flto -funroll-loops -march=native -fno-strict-aliasing -Wformat=2 -Wpacked -Wnested-externs -Wpointer-arith -Wredundant-decls -Wfloat-equal -Wcast-align -Wnested-externs -Wstrict-prototypes -Wa,-q -c stringparse.c -o stringparse.o
clang: warning: argument unused during compilation: '-Wa,-q' [-Wunused-command-line-argument]
In file included from stringparse.c:9:
./strtonum.c:119:15: warning: comparing floating point with == or != is unsafe [-Wfloat-equal]
if (savedval==0) return copysign(0, sign);
~~~~~~~~^ ~
In file included from stringparse.c:11:
./strtonum.c:119:15: warning: comparing floating point with == or != is unsafe [-Wfloat-equal]
if (savedval==0) return copysign(0, sign);
~~~~~~~~^ ~
2 warnings generated.
gcc -DUSE_STRINGPARSE -ggdb -Wsign-compare -Wall -Wextra -Wshadow -Wunused -std=c99 -g -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE -D_POSIX_SOURCE -D_POSIX_C_SOURCE=200809L -D_SVID_SOURCE -D_DARWIN_C_SOURCE -O3 -Ofast -ftree-vectorize -flto -funroll-loops -march=native -fno-strict-aliasing -Wformat=2 -Wpacked -Wnested-externs -Wpointer-arith -Wredundant-decls -Wfloat-equal -Wcast-align -Wnested-externs -Wstrict-prototypes -Wa,-q -c check_syscalls.c -o check_syscalls.o
clang: warning: argument unused during compilation: '-Wa,-q' [-Wunused-command-line-argument]
gcc main.o convert_trees_to_lhalo.o utils.o progressbar.o stringparse.o check_syscalls.o -flto -lm -ggdb -Wsign-compare -Wall -Wextra -Wshadow -Wunused -std=c99 -g -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE -D_POSIX_SOURCE -D_POSIX_C_SOURCE=200809L -D_SVID_SOURCE -D_DARWIN_C_SOURCE -O3 -Ofast -ftree-vectorize -flto -funroll-loops -march=native -fno-strict-aliasing -Wformat=2 -Wpacked -Wnested-externs -Wpointer-arith -Wredundant-decls -Wfloat-equal -Wcast-align -Wnested-externs -Wstrict-prototypes -Wa,-q -o convert_trees_to_lhalo
clang: warning: argument unused during compilation: '-Wa,-q' [-Wunused-command-line-argument]
gcc -DUSE_STRINGPARSE -ggdb -Wsign-compare -Wall -Wextra -Wshadow -Wunused -std=c99 -g -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE -D_POSIX_SOURCE -D_POSIX_C_SOURCE=200809L -D_SVID_SOURCE -D_DARWIN_C_SOURCE -O3 -Ofast -ftree-vectorize -flto -funroll-loops -march=native -fno-strict-aliasing -Wformat=2 -Wpacked -Wnested-externs -Wpointer-arith -Wredundant-decls -Wfloat-equal -Wcast-align -Wnested-externs -Wstrict-prototypes -Wa,-q -c tests/compare_two_lhalotree.c -o tests/compare_two_lhalotree.o
clang: warning: argument unused during compilation: '-Wa,-q' [-Wunused-command-line-argument]
gcc tests/compare_two_lhalotree.o utils.o -flto -lm -ggdb -Wsign-compare -Wall -Wextra -Wshadow -Wunused -std=c99 -g -m64 -fPIC -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -D_BSD_SOURCE -D_POSIX_SOURCE -D_POSIX_C_SOURCE=200809L -D_SVID_SOURCE -D_DARWIN_C_SOURCE -O3 -Ofast -ftree-vectorize -flto -funroll-loops -march=native -fno-strict-aliasing -Wformat=2 -Wpacked -Wnested-externs -Wpointer-arith -Wredundant-decls -Wfloat-equal -Wcast-align -Wnested-externs -Wstrict-prototypes -Wa,-q -o compare_two_lhalotree
clang: warning: argument unused during compilation: '-Wa,-q' [-Wunused-command-line-argument]
ctrees outputs the index into scales.txt as the field snap_num. This was fixed in ctrees in commit 665cf33.
Someone trying to compare to the original halo catalog or the simulation snapshot will not be able to do so. The fix is fairly simply, all snap_num values need to be shifted by a fixed amount (basically the number of snapshots that ctrees did not use)
Off by one error in the parsing. M_Mean200 contains Mvir_all and SphericalTophat contains 200b.
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