merge develop branch#45

Merged

fgvieira merged 20 commits intomasterfrom

Jul 23, 2025

Commits on Jul 3, 2025

Small change to avoid compilation warning
Thorfinn Sand Korneliussen
committed
Updated action so it includes logfile from test and test scripts exits if required programs are missing
Thorfinn Sand Korneliussen
committed
Added fix in typo
Thorfinn Sand Korneliussen
committed
Added fix in typo
Thorfinn Sand Korneliussen
committed
command is required when checking for existance of path executables
Thorfinn Sand Korneliussen
committed
uses pipe instead of comma in path seperation
Thorfinn Sand Korneliussen
committed

Commits on Jul 5, 2025

Updated Makefile, got help from the electrobrain
Your Name
committed
Updated Makefile, got help from the electrobrain
Your Name
committed

Commits on Jul 20, 2025

cloning instead of submodule
Your Name
committed
removed htslib as submodule
Your Name
committed
readded missing files
Your Name
committed
Updated makefiles
Your Name
committed
updated so 200 is not the limit anymore, unit test seems to pass. only had to update rlens checksum
Your Name
committed
md5sum was malformed
Your Name
committed

Commits on Jul 21, 2025

made usedreads and family out default. changed to bam
Your Name
committed

Commits on Jul 22, 2025

made the binary version optional with the -usedump this will close #42 and #43
Your Name
committed
changed mea_len to mean_len this will resolve issue #21
Your Name
committed

Commits on Jul 23, 2025

Apparently one if the dfit files gives different results depending on threading. I have commented it out. Removed numfmt from the testscript
Thorfinn Sand Korneliussen
committed
Forgot to comment out the non mac checksum
Thorfinn Sand Korneliussen
committed
Some cleanup
Thorfinn Sand Korneliussen
committed