[Debian-med-packaging] Bug#958090: diamond-aligner 0.9.31-1 fails on architectures where char is unsigned

[Adrian Bunk]

Package: diamond-aligner
Version: 0.9.31-1
Severity: serious
Tags: ftbfs
Control: affects -1 src:proteinortho

https://ci.debian.net/data/autopkgtest/testing/arm64/p/proteinortho/4965864/log.gz
https://buildd.debian.org/status/package.php?p=proteinortho&suite=sid

...
	make -j4 test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
[TEST] Clean up all test files...
[TEST] 1. basic proteinortho6.pl -step=2 test. (algorithms that are not present are skipped)
[TEST] Clean up all test files...
 [1/12] -p=blastp+ test: passed
 [2/12] -p=blastp+ synteny (PoFF) test: tput: No value for $TERM and no -T specified
[STDERR] Error: wrong fromat... Please make sure you only provide *.blast-graph or *.proteinortho-graph files as input...
Died at .//src/BUILD/Linux_aarch64/proteinortho_summary.pl line 117, <$FH> line 2.
USAGE: proteinortho2html.pl <myproject.proteinortho> (<fasta1> <fasta2> ...)
the first argument points to the proteinortho output (tsv)-file. Any further (optional) files should be fasta files, for conversion of the identifier to a proper gene name/ describtion. The HTML output is printed to stdout, use '>' to write the html output to a file.
passed
 [3/12] -p=diamond test: 
Parameter-vector : (version=6.0.15,step=0,verbose=0,debug=1,exactstep3=0,synteny=0,duplication=2,cs=3,alpha=0.5,connectivity=0.1,cpus=4,evalue=1e-05,purity=1e-07,coverage=50,identity=25,blastmode=diamond,sim=0.95,report=3,keep=0,force=1,selfblast=0,twilight=0,singles=0,clean=0,blastOptions=,nograph=0,xml=0,desc=0,tmp_path=./proteinortho_cache_test_diamond/,blastversion=unknown,binpath=,makedb=diamond makedb --in,blast=,jobs_todo=10,project=test_diamond,po_path=.//src/BUILD/Linux_aarch64,run_id=,threads_per_process=1,useMcl=0,freemem=-1)


[Error]  diamond failed.
The most likely  errorsources of this are:
- no space left on device error.
- outdated diamond, please update diamond or consider another -p algorithm.
- the databases are missing. Maybe you ran --step=1 and removed the databases afterwards? Please rerun 'proteinortho --step=1 --force /path/to/fastas'
- maybe the fasta files are mixed nucleotide and aminoacid sequences or just not suited for diamond? (For example diamond only processes protein sequences) Try 'proteinortho --step=1 --check --force /path/to/fastas'.  

(If you cannot solve this error, please send a report to incoming+paulklemm-phd-proteinortho-7278443-issue- at incoming.gitlab.com including the parameter-vector above or visit https://gitlab.com/paulklemm_PHD/proteinortho/wikis/Error%20Codes for more help. Further more all mails to lechner at staff.uni-marburg.de are welcome)


Perl exited with active threads:
	3 running and unjoined
	0 finished and unjoined
	0 running and detached
Error, could not open file test_diamond.proteinortho.tsv: No such file or directory at ./src/chk_test.pl line 6.
make[1]: *** [Makefile:253: test_step2] Error 2