Themisto hangs with invalid input format

[AntonBogun]

Reproduction:

• Repeat steps here Output is not sorted with --sort-output #28 (comment) but remove the newline at the end of the last line, or remove more lines, for example being left with

@Example
CTTTGTGCGCTTCACTCATGTTCCACGCCACCATCAACAGCAGGGCAGCCATGGCGGAAAGCGGCAGCCAGGAGAGCAGCGGTGCCAGTACCAGCAGGGC

• When running the pseudoalignment with the same command, the stderr output should be

50.1910 Mon Aug 28 02:54:09 2023 Themisto-v3.1.3
50.3850 Mon Aug 28 02:54:09 2023 Maximum k-mer length (size of the de Bruijn graph node labels): 32
51.7450 Mon Aug 28 02:54:09 2023 Starting
51.8230 Mon Aug 28 02:54:09 2023 Loading the index
75.9620 Mon Aug 28 02:54:09 2023 sdsl coloring structure loaded
76.0230 Mon Aug 28 02:54:09 2023 Aligning example.fastq (writing output to out.txt)
Input: 0.000000 Mbase/s

With the last line remaining there indefinitely.

[jnalanko]

Thanks for the report, I'll look into getting this fixed as soon as I have time.

[jnalanko]

At commit aeeecef, Themisto now correctly crashes on this file, printing: Runtime error: FASTQ file example.fastq ended unexpectedly.