Unexpected 'g' when converting from type char[] to type ulong about msmc

[stschiff]

It says it has trouble parsing the command line. Could you please post your command line here?

[hyperoplus]

Hi @stschiff , here it goes:

./msmc -o testmsmc_chr1 chr1.msmc.input

Since this is my first trial, I did a single input (one chromosome), and didn't specify any other options apart from the output, as stated in the guide for more simple runs.

[stschiff]

I cannot reproduce this. I copied your content from your input file above into a file and then simply ran the command line you gave here. It started normally (didn't check whether it finishes, though). But definitely no command line error.

Your error doesn't quite fit the command line. It complains that it can't parse a "g" where it expects a number. But you haven't given any option and nothing with a letter g. Can you check again that the error above occurs with exactly the command line you've posted here? Doesn't seem right.

[stschiff]

Note that I anyway recommend MSMC2 (https://github.com/stschiff/msmc2)

[hyperoplus]

@stschiff Thanks for the patience in trying to troubleshoot this. I've made a screenshot showing the error appearing, both when running MSMC and MSMC2 (precompiled binaries, I also recompiled MSMC from source):

https://drive.google.com/file/d/1HqglSG3xWWhz6Va_3RJ8COmv89E71Nsr/view?usp=sharing

I've checked my installation of GSL and it appears fine, it is installed in /usr/local/lib do you think this could be a issue?

[stschiff]

Hmm... bizarre. Perhaps this is due to a change in the standard library of D. I will have to recompile and check on our linux cluster, perhaps I can reproduce it there.

[stschiff]

Still can't reproduce this with v1.1.1. I'm gonna have to close this.