I made updates to the landing pages to have both commands. For example:
Source Repository: git clone https://git.bioconductor.org/packages/bsseq Source Repository (Developer Access): git clone g...@git.bioconductor.org:packages/bsseq We didn't want simply Source Repository (https) and Source Repository (ssh) as with our experience with users, the naive user doesn't know the difference between ssh and https and as Nitesh pointed out only developers of the package will have RW access via ssh. If you think something else is more appropriate please let me know and I can make further changes. The website should reflect the new landing pages within the hour. Lori Shepherd Bioconductor Core Team Roswell Park Cancer Institute Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 ________________________________ From: Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of Kasper Daniel Hansen <kasperdanielhan...@gmail.com> Sent: Monday, May 7, 2018 4:56:43 AM To: Morgan, Martin Cc: bioc-devel@r-project.org Subject: Re: [Bioc-devel] Switch to SSH protocol for git clone instructions on package landing pages? I think I am formulating myself pretty badly. If I want to get the Bioconductor git address for a package I gott o (say) https://www.bioconductor.org/packages/bsseq At the bottom of this page, under the heading "Package Archive" I see the source repository (The Bioconductor git pointer, which is different from our devel repos on Github). This is currently Source Repository: git clone https://git.bioconductor.org/packages/bsseq I am lazy. I like cut'and'paste. I would like this to be changed to Source Repository (https): git clone https://git.bioconductor.org/packages/bsseq Source Repository (ssh): git clone g...@git.bioconductor.org: packages/bsseq This is a small thing, but there are subtle differences wrt : and / in the way the two protocols are written. On Github there is a drop-down menu giving me the choice of how to clone the repos, which I find very useful. Best, Kasper On Mon, May 7, 2018 at 12:22 AM, Martin Morgan < martin.mor...@roswellpark.org> wrote: > > > On 04/30/2018 08:17 AM, Kasper Daniel Hansen wrote: > >> Still, it is convenient for some of us to have copy+paste code on the >> landing page. How about having both https and ssh? >> > > Supporting https:// would require account and password management. I > guess we have moved closer to that than originally anticipated, but we were > trying to avoid getting involved in that. Also, we had not anticipated that > some organizations would block ssh activity. At the moment and for the > foreseeable future, https is read-only. > > Martin > > > >> On Sun, Apr 29, 2018 at 8:57 AM, Peter Hickey <peter.hic...@gmail.com> >> wrote: >> >> Ah, thanks both Joris and Nitesh. I didn't appreciate that SSH access is >>> limited to those with a public key registered on the git server. >>> >>> On Sun, 29 Apr 2018 at 11:50 Turaga, Nitesh < >>> nitesh.tur...@roswellpark.org >>> >>>> >>>> wrote: >>> >>> Hi Pete, >>>> >>>> For developers there is no reason not to use the SSH protocol. But there >>>> are many people who�d like to clone the repo and look at it on their >>>> >>> local >>> >>>> machine. >>>> >>>> Take for example packages which are not maintained on both the >>>> bioconductor server and Github. For these packages, a good way for users >>>> >>> to >>> >>>> browse the source code on their local machine is using the HTTPS >>>> >>> protocol, >>> >>>> since they will not have access to download it via SSH ( you need >>>> permissions to do this). >>>> >>>> We always advocate developers to only use SSH though. For everyone else, >>>> HTTPS is the best option. >>>> >>>> Best, >>>> >>>> Nitesh >>>> >>>> On Apr 29, 2018, at 10:03 AM, Peter Hickey <peter.hic...@gmail.com> >>>>> >>>> wrote: >>>> >>>>> >>>>> The one-liner on the package landing page describing how to check out >>>>> a package from the git repo uses HTTPS rather than ssh, e.g.: >>>>> >>>>> # From https://bioconductor.org/packages/bsseq/ >>>>> git clone https://git.bioconductor.org/packages/bsseq >>>>> >>>>> However, as a developer we should be using the SSH protocol >>>>> (https://bioconductor.org/developers/how-to/git/faq/). >>>>> >>>>> Is there any reason not to use the SSH protocol (i.e. git clone >>>>> g...@git.bioconductor.org:packages/bsseq) in the instructions given on >>>>> the landing page? It seems to me an unnecessary source of friction, >>>>> particularly for new developers who will end up with the dreaded >>>>> "fatal: remote error: FATAL: W any packages/myPackage nobody DENIED by >>>>> fallthru (or you mis-spelled the reponame)" error message if they >>>>> don't know to switch protocols >>>>> (https://bioconductor.org/developers/how-to/git/faq/) >>>>> >>>>> Cheers, >>>>> Pete >>>>> >>>>> _______________________________________________ >>>>> Bioc-devel@r-project.org mailing list >>>>> https://stat.ethz.ch/mailman/listinfo/bioc-devel >>>>> >>>> >>>> >>>> >>>> This email message may contain legally privileged and/or confidential >>>> information. If you are not the intended recipient(s), or the employee >>>> >>> or >>> >>>> agent responsible for the delivery of this message to the intended >>>> recipient(s), you are hereby notified that any disclosure, copying, >>>> distribution, or use of this email message is prohibited. If you have >>>> received this message in error, please notify the sender immediately by >>>> e-mail and delete this email message from your computer. Thank you. >>>> >>> >>> [[alternative HTML version deleted]] >>> >>> _______________________________________________ >>> Bioc-devel@r-project.org mailing list >>> https://stat.ethz.ch/mailman/listinfo/bioc-devel >>> >>> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel >> >> > > This email message may contain legally privileged and/or confidential > information. If you are not the intended recipient(s), or the employee or > agent responsible for the delivery of this message to the intended > recipient(s), you are hereby notified that any disclosure, copying, > distribution, or use of this email message is prohibited. If you have > received this message in error, please notify the sender immediately by > e-mail and delete this email message from your computer. Thank you. > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel This email message may contain legally privileged and/or confidential information. If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited. If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you. [[alternative HTML version deleted]]
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