Bootstrapping error #11
Description
Dear @BenoitMorel ,
Thanks for creating such a great program. I'm really interested to see how it performs on our data relative to other software (e.g. astral, astrid). Asteroid seems to have no issue building the best tree, but then aborts at the start of bootstrapping.
Input trees
bestparalog_treeshrink_output.txt
Output - best tree
I think this may be some issue on my end but can't figure out what it is.
Many thanks,
Craig
(base) cbarrett@myco:/data/cbarrett/2024_Calypsoinae/hybpiper_2024_01_08/best_paralog/trimal/iqtree_bestparalog_treeshrink$ /usr/local/src/Asteroid/build/bin/asteroid -i bestparalog_treeshrink_output.treefile -p asteroidZZZZ.tre -r 10 -b 100 --use-gene-bl
--------------------------------------------------------------------------
[[13933,1],0]: A high-performance Open MPI point-to-point messaging module
was unable to find any relevant network interfaces:
Module: OpenFabrics (openib)
Host: myco
Another transport will be used instead, although this may result in
lower performance.
--------------------------------------------------------------------------
[00:00:00] Asteroid v1.0
Asteroid was called as follow:
/usr/local/src/Asteroid/build/bin/asteroid -i bestparalog_treeshrink_output.treefile -p asteroidZZZZ.tre -r 10 -b 100 --use-gene-bl
[00:00:00] Parsing gene trees...
[00:00:00] End of parsing gene trees
[00:00:00] Mapping gene to species...
[00:00:00] Extracting mappings from the gene trees...
[00:00:00] Computing coverage...
Number of species: 44
Total number of gene trees: 232
Number of distinct coverage patterns:202
Total number of gene leaves: 7418
Sampling proportion: 0.726685
[00:00:00] Computing internode distances from the gene trees...
[00:00:00] Asteroid will now search for the best scoring tree from 10 starting trees
[00:00:00] Starting tree search 0
score: -82.5065
[00:00:01] Starting tree search 1
score: -82.5065
[00:00:04] Starting tree search 2
score: -82.5065
[00:00:06] Starting tree search 3
score: -82.5065
[00:00:08] Starting tree search 4
score: -82.5065
[00:00:09] Starting tree search 5
score: -82.5065
[00:00:12] Starting tree search 6
score: -82.5065
[00:00:14] Starting tree search 7
score: -82.5065
[00:00:15] Starting tree search 8
score: -82.5065
[00:00:17] Starting tree search 9
score: -82.5065
[00:00:19] Printing the best tree into asteroidZZZZ.tre.bestTree.newick
[00:00:19] Asteroid will now compute 100 bootstrap trees
asteroid: /usr/local/src/Asteroid/src/asteroid/asteroid.cpp:630: int main(int, char**): Assertion `arg.inputBSGeneTreeFile.size()' failed.
[myco:15721] *** Process received signal ***
[myco:15721] Signal: Aborted (6)
[myco:15721] Signal code: (-6)
[myco:15721] [ 0] /lib/x86_64-linux-gnu/libpthread.so.0(+0x11390)[0x7fd599d8d390]
[myco:15721] [ 1] /lib/x86_64-linux-gnu/libc.so.6(gsignal+0x38)[0x7fd5999e7438]
[myco:15721] [ 2] /lib/x86_64-linux-gnu/libc.so.6(abort+0x16a)[0x7fd5999e903a]
[myco:15721] [ 3] /lib/x86_64-linux-gnu/libc.so.6(+0x2dbe7)[0x7fd5999dfbe7]
[myco:15721] [ 4] /lib/x86_64-linux-gnu/libc.so.6(+0x2dc92)[0x7fd5999dfc92]
[myco:15721] [ 5] /usr/local/src/Asteroid/build/bin/asteroid(main+0x1e69)[0x41b679]
[myco:15721] [ 6] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7fd5999d2840]
[myco:15721] [ 7] /usr/local/src/Asteroid/build/bin/asteroid(_start+0x29)[0x41c119]
[myco:15721] *** End of error message ***
Aborted (core dumped)