Hi Tin, I deleted the fork since as you mentioned the changes were merged into the main repository.
Thanks! Lauren On Wed, Aug 31, 2016 at 1:31 AM, Duy Tin Truong <[email protected]> wrote: > Hi Andreas, > > That is the fork from Lauren and we merged the change into the main > repository. The main repository is still at: > https://bitbucket.org/biobakery/metaphlan2/overview > > Thanks, > Tin > > On Wed, Aug 31, 2016 at 9:11 AM Andreas Tille <[email protected]> wrote: > >> Hi again, >> >> I'm pretty sure I have seen the 2.6.0 tag right after your mail. I was >> a bit busy since then and wanted to have a look now. I noticed that >> metaphlan2 moved to another user on bitbucket and >> >> https://bitbucket.org/ljmciver/metaphlan2/downloads?tab=tags >> >> only shows 2.5.0 as latest tag. >> >> Am I missing something? >> >> Kind regards >> >> Andreas. >> >> On Fri, Aug 19, 2016 at 12:18:31PM +0200, Andreas Tille wrote: >> > Hi Duy, >> > >> > thanks for the information. It might take some time since I'll be a bit >> > offline-ish next week but now I know what the correct target for the >> > package will be. >> > >> > Kind regards >> > >> > Andreas. >> > >> > On Fri, Aug 19, 2016 at 07:17:25AM +0000, Duy Tin Truong wrote: >> > > Hi Andreas, >> > > >> > > Thanks for your explanation. We have officially updated metaphlan2 to >> > > version 2.6.0 as shown in tags. >> > > So, when it is convenient for you, please help to add the package of >> this >> > > new version. >> > > >> > > Many thanks, >> > > Tin >> > > >> > > On Fri, Aug 12, 2016 at 6:31 PM Andreas Tille <[email protected]> >> wrote: >> > > >> > > > Hi Tin, >> > > > >> > > > On Fri, Aug 12, 2016 at 03:30:25PM +0000, Duy Tin Truong wrote: >> > > > > > However the hint ot hclust2[1] is helpful. Unfortunately I can >> not >> > > > find >> > > > > > any description for this software. Since you might have some >> > > > influence on >> > > > > > this it would be great to provide a hint where I can find a >> > > > description for >> > > > > > a potential package. >> > > > > > >> > > > > hclust2 is used to plot heat-maps and not directly used in >> metaphlan2.py >> > > > or >> > > > > strainphlan.py. In other words, metaphlan2 does not depend >> tightly on >> > > > this >> > > > > tool. However, I will update the wiki page later. >> > > > >> > > > Sounds like a neat tool anyway - so if there is a description I >> could >> > > > provide a package. >> > > > >> > > > > > > and here for strainphlan (another brother tool uses the same >> database >> > > > > > with >> > > > > > > metaphlan2 and both are in the same repository and should go >> > > > together, >> > > > > > > strainphlan is in strainphlan.py and metaphlan2 is in >> metaphlan2.py): >> > > > > > > >> > > > > > >> > > > https://bitbucket.org/biobakery/metaphlan2#markdown- >> header-pre-requisites_1 >> > > > > > >> > > > > > Well, the download file for metaphlan2 version 2.5 has >> strainer_src and >> > > > > > metaphlan2_strainer.py - is this what you mean? >> > > > > > >> > > > > Yes, strainer_src is now strainphlan_src and >> metaphlan2_strainer.py is >> > > > now >> > > > > strainphlan.py. As I mentioned before, it is better to use the >> latest >> > > > > version of the repository now because the tutorial now fits with >> the new >> > > > > names: >> > > > > >> > > > https://bitbucket.org/biobakery/metaphlan2#markdown- >> header-metagenomic-strain-level-population-genomics >> > > > > >> > > > > and we may not change them again :). >> > > > >> > > > So *if* you want to let users use the latest state of the >> repository why >> > > > don't you do a new versioned release to make it official. Debian >> uses a >> > > > system to check web pages for versioned releases. We can not sneak >> into >> > > > each repository nor wild guessing if it is a stable commit or not. >> Is >> > > > there any reason not to release say version 2.6 or 2.5.1 or >> whatever? >> > > > >> > > > Kind regards >> > > > >> > > > Andreas. >> > > > >> > > > > > [1] https://bitbucket.org/nsegata/hclust2 >> > > > >> > > > -- >> > > > http://fam-tille.de >> > > > >> > >> > -- >> > http://fam-tille.de >> > >> > >> >> -- >> http://fam-tille.de >> >
