Re: [Bioc-devel] openbabel 2.4.1

2017-05-23 Thread Obenchain, Valerie
Hi Kevin, I'll update this (with Herve's help) and will let you know when it's done. Valerie On 05/22/2017 01:21 PM, Kevin Horan wrote: > The package ChemmineOB depends on the external library OpenBabel. There > is now a new version of it, version 2.4.1. Could you please install this > on

[Bioc-devel] How can I fix a vignette error in tokay1

2017-05-23 Thread Juan David Henao Sanchez
Hi, I get the next error when tokay1 runs my vignette.rmd file: LaTeX Error: File `framed.sty 'not found. How can I fix this error? Regards. -- Juan David Henao Maestría en Bioinformática Universidad Nacional de Colombia [[alternative HTML version deleted]]

Re: [Bioc-devel] mzR: pwiz is now the default backend

2017-05-23 Thread Rainer Johannes
actually, I got quite some segfaults lately with the Ramp backend (was default up to now). With the pwiz backend I don't get them anymore. Also, in xcms we were manually setting the backend to pwiz and did not experience any problems. cheers, jo On 23 May 2017, at 18:35, Laurent Gatto

Re: [Bioc-devel] mzR: pwiz is now the default backend

2017-05-23 Thread Laurent Gatto
On 23 May 2017 16:26, Vladislav Petyuk wrote: > Are there going to be any noticeable changes for the package users? Does > it break compatibility? Do I need to install something extra (like > ProteoWizard)? In theory, we don't expect any downstream effects: no breaks, no extra dependencies,

Re: [Bioc-devel] mzR: pwiz is now the default backend

2017-05-23 Thread Vladislav Petyuk
Are there going to be any noticeable changes for the package users? Does it break compatibility? Do I need to install something extra (like ProteoWizard)? On Tue, May 23, 2017 at 9:10 AM Laurent Gatto wrote: > > Dear developer, > > For those who use mzR to access raw mass

[Bioc-devel] mzR: pwiz is now the default backend

2017-05-23 Thread Laurent Gatto
Dear developer, For those who use mzR to access raw mass spectrometry data, please note that we have change the default backend from Ramp to pwiz. The old backend is still available using openMSfile(filename, backend = "Ramp") See https://github.com/sneumann/mzR/issues/84 for details.