Wrong calls of snpEff in snippy (Was: Could some SnpEff user from the community please ping authors)

2023-12-06 Thread Andreas Tille
Control: reassign -1 snippy Control: retitle -1 Wrong calls of snpEff Control: tags -1 upsteam Control: forwarded -1 https://github.com/pcingola/SnpEff/issues/510 Thanks to snpEff upstream I've found a solution[1] for the problem reported above. I've also added a conscise test case[2] which was e

Re: Could some SnpEff user from the community please ping authors

2023-12-06 Thread Andreas Tille
Hi Nilesh, Am Wed, Dec 06, 2023 at 02:00:52AM +0530 schrieb Nilesh Patra: > Sometimes just tagging upstream author does wonders :) I hope I'll keep that trick in mind! ;-) > They have replied and the (upstream) bug has been closed. > BTW, are you able to still reproduce (without any fixes for sn

Re: Could some SnpEff user from the community please ping authors

2023-12-05 Thread Pierre Gruet
Hi Nilesh, Le 05/12/2023 à 21:30, Nilesh Patra a écrit : On Tue, Nov 28, 2023 at 05:54:30PM +0100, Andreas Tille wrote: I wonder whether some people from the community might be able to join our attempt to get this issue fixed and raise their voice inside the Github issue (or use other channels)

Re: Could some SnpEff user from the community please ping authors

2023-12-05 Thread Nilesh Patra
On Tue, Nov 28, 2023 at 05:54:30PM +0100, Andreas Tille wrote: > I wonder whether some people from the community might be able to join > our attempt to get this issue fixed and raise their voice inside the > Github issue (or use other channels) to get this finally fixed. I guess > the problem does

Could some SnpEff user from the community please ping authors

2023-11-28 Thread Andreas Tille
Hi, we tried to package snippy which has uncovered a bug in SnpEff which we have reported upstream[1] with some easily verificable data set and command line. Unfortunately we did not had any response from upstream. We even would consider to revert SnpEff version to a working one without this regr