Afif Elghraoui

Great. Thanks for that information!

source code for ConsPred2 binary

looks like this file was supposed to be a symlink. I guess mine got converted to a regular file somehow.

I just had one of our users experience this problem. He traced it to spaces in the headers of the reads fasta file, where "header1 additional_info" wouldn't match the string as appears in the blasr output ("header1"). I made the following patch to address the problem: --- /usr/local/apps/pbsuite/15.8.24/pbsuite/utils/FileHandlers.py~ 2015-08-24 13:42:15.000000000 -0400 +++ /usr/local/apps/pbsuite/15.8.24/pbsuite/utils/FileHandlers.py 2017-07-27 16:39:12.591370000 -0400 @@ -33,7 +33,7 @@ def __parse(self):...

One of our users ran into an error with fakeQuals.py: $ fakeQuals.py --help Traceback (most recent call last): File "/usr/local/apps/pbsuite/15.8.24/bin/fakeQuals.py", line 4, in <module> from FileHandlers import FastaFile ImportError: No module named FileHandlers It looks like the import statement is off. The following change fixes it. --- /usr/local/apps/pbsuite/15.8.24/bin/fakeQuals.py~ 2017-07-21 18:27:28.697420000 -0400 +++ /usr/local/apps/pbsuite/15.8.24/bin/fakeQuals.py 2017-07-27 11:22:01.864624000...

just found that old blasr5 ticket again and re-read your post https://sourceforge.net/p/pb-jelly/tickets/5/#8255 Since the additional changes you talked about got delayed, would you mind just making a release with the current feature-set as a hold-over?

just found that old blasr5 ticket again and re-read your post https://sourceforge.net/p/pb-jelly/tickets/5/#8255 Since the additional changes you talked about got delayed, would you mind just making a release with the current status as a hold-over?

We received a request to install pbsuite on our cluster, but I'd like to get a version that's compatible with the latest blasr version. When do you think you could finalize the next release, which would include those changes?