[Bioc-devel] Bioconductor package landing pages
Nima Hejazi
nhejazi at berkeley.edu
Tue Sep 12 08:54:21 CEST 2017
Hi Hervé ---
Thanks for pointing out all of the information available on the builds to
me. Based on the information you point out, I think I've been able to add
the required data set to the biotmleData package by bumping the versions on
the RELEASE_3_5 and master branches appropriately (and made sure the
version numbers differ this time). Thanks much for your help.
Warm Regards,
— Nima Hejazi
--
Nima Hejazi
Doctoral Student
Division of Biostatistics
University of California, Berkeley
van der Laan Group <https://www.stat.berkeley.edu/~laan/> | Hubbard Group
<http://hubbard.berkeley.edu/>
http://www.stat.berkeley.edu/~nhejazi
http://nimahejazi.org | Nima's blog <http://nimahejazi.org/blog/>
On Mon, Sep 11, 2017 at 10:49 PM, Hervé Pagès <hpages at fredhutch.org> wrote:
> Hi Nima,
>
> The build machines are NOT trying to use version 1.0.0 of the
> biotmleData package. They are using the version that is currently
> publicly available here:
>
>
> https://bioconductor.org/packages/3.6/data/experiment/html/
> biotmleData.html
>
> It's version 1.1.0. The build machines installed it with just
> biocLite("biotmleData"), like any user would. FWIW you can see all
> the packages that are installed on the build machines by clicking
> on the numbers in the "Installed pkgs" columns in the little table
> at the top of the build report:
>
> https://bioconductor.org/checkResults/3.6/bioc-LATEST/
>
> The problem is that this version of biotmleData does not have the
> rnaseqtmleOut dataset. This is easy to verify:
>
> > library(BiocInstaller)
> Bioconductor version 3.6 (BiocInstaller 1.27.4), ?biocLite for help
>
> > biocLite("biotmleData")
> BioC_mirror: https://bioconductor.org
> Using Bioconductor 3.6 (BiocInstaller 1.27.4), R 3.4.0 Patched (2017-04-26
> r72630).
> Installing package(s) 'biotmleData'
> trying URL 'https://bioconductor.org/packages/3.6/data/experiment/src/
> contrib/biotmleData_1.1.0.tar.gz'
> Content type 'application/x-gzip' length 30240432 bytes (28.8 MB)
> ==================================================
> downloaded 28.8 MB
>
> * installing *source* package 'biotmleData' ...
> ** R
> ** data
> *** moving datasets to lazyload DB
> ** preparing package for lazy loading
> ** help
> *** installing help indices
> ** building package indices
> ** testing if installed package can be loaded
> * DONE (biotmleData)
>
> The downloaded source packages are in
> '/tmp/Rtmp6y3T4h/downloaded_packages'
> Updating HTML index of packages in '.Library'
> Making 'packages.html' ... done
>
> > library(biotmleData)
>
> > data(rnaseqtmleOut)
> Warning message:
> In data(rnaseqtmleOut) : data set 'rnaseqtmleOut' not found
>
> Even though the dataset is now included in the *git source* of the
> package, which is also at version 1.1.0, it seems that at the
> time biotmleData 1.1.0 propagated to our public repo, it didn't
> have it.
>
> So all you need to do is bump biotmleData's version to 1.1.1.
>
> Travis's Ubuntu, Appveyor, and your local machine (macOS) probably
> use the git version of biotmleData so that's why biotmle builds there.
>
> Having different versions of a package around that have the same version
> number is always a source of *a lot* of confusion!
>
> Hope this helps,
> H.
>
>
>
> On 09/10/2017 08:30 PM, Nima Hejazi wrote:
>
>> Hi Hervé,
>>
>> Thanks for your note. I do indeed believe that the error was initially
>> due to the build trying to use an older version of the data package
>> biotmleData (1.0.0, as you stated). After the update of biotmleData (to
>> 1.1.0; aside: I realize this is rather bad practice, but I don't intend
>> to update the data package frequently at all -- hopefully never after
>> the next release), the package biotmle ought to be building properly. In
>> fact, as far as I can tell there might some kind of issue related to
>> caching in the Bioconductor build because
>>
>> 1) biocLite is installing v.1.1.0 of biotmleData, which is the version
>> required to properly build biotmle
>> 2) independent builds are passing on all systems: Travis's Ubuntu,
>> Appveyor, and my local machine (macOS)
>> 3) I bumped the version of biotmle last week but even the most recent
>> build (as of 09 September) is still failing, due to trying to use
>> v.1.0.0 of biotmleData
>>
>> Is there something more I should be doing to fix the build? Thanks in
>> advance for your help.
>>
>> Warm Regards,
>> — Nima Hejazi
>>
>> --
>> Nima Hejazi
>> Doctoral Student
>> Division of Biostatistics
>> University of California, Berkeley
>> van der Laan Group
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__www.
>> stat.berkeley.edu_-7Elaan_&d=DwMFaQ&c=eRAMFD45gAfqt84VtBcfh
>> Q&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=2wRqRZa37y
>> _UI111jV40ovpjdh4LfgSjLQBcpgsP_wc&s=MTTWsO0CHDXNi2QEGOXXy6W3
>> JoXnR8jmARpH95embb4&e=>
>> | Hubbard Group
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> hubbard.berkeley.edu_&d=DwMFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK
>> 7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=2wRqRZa37y_UI111
>> jV40ovpjdh4LfgSjLQBcpgsP_wc&s=1wPcpJEnKkTlWVvwSo3snmkolzodlq
>> _4HV8thMQyQeo&e=>
>> http://www.stat.berkeley.edu/~nhejazi
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__www.
>> stat.berkeley.edu_-7Enhejazi&d=DwMFaQ&c=eRAMFD45gAfqt84VtBc
>> fhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=2wRqRZa3
>> 7y_UI111jV40ovpjdh4LfgSjLQBcpgsP_wc&s=JjREjYmeoh3-mFCS4jDgd5
>> TcPfqhYsfZX71QD6BXKWc&e=>
>> http://nimahejazi.org
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> nimahejazi.org_&d=DwMFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3
>> XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=2wRqRZa37y_UI111jV4
>> 0ovpjdh4LfgSjLQBcpgsP_wc&s=0Ib9ncWCyvezv9EwAgxToXhyNwIXePUe9a-Lw8BYodg&e=>
>> |
>> Nima's blog
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> nimahejazi.org_blog_&d=DwMFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7
>> q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=2wRqRZa37y_UI111j
>> V40ovpjdh4LfgSjLQBcpgsP_wc&s=LgpvMqHhFGGQuu5ONvmoSNUFvHJ_EMh
>> t0ksaQFECWN0&e=>
>>
>> On Wed, Sep 6, 2017 at 9:15 AM, Hervé Pagès <hpages at fredhutch.org
>> <mailto:hpages at fredhutch.org>> wrote:
>>
>> Hi Nima,
>>
>> Normally you have to allow 24 hours or so to see your changes show up
>> on the build report:
>>
>> https://bioconductor.org/checkResults/3.5/data-experiment-LATEST/
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__
>> bioconductor.org_checkResults_3.5_data-2Dexperiment-
>> 2DLATEST_&d=DwMFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWd
>> GbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=2wRqRZa37y_UI111jV40ovpjdh4L
>> fgSjLQBcpgsP_wc&s=mDW2T8DX9a7ih1OpihXfq0QpFhLig0EVcrr5Z-T1MGc&e=>
>>
>> and on the package landing page:
>>
>>
>> https://bioconductor.org/packages/3.5/data/experiment/html/
>> biotmleData.html
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__
>> bioconductor.org_packages_3.5_data_experiment_html_biotmleDa
>> ta.html&d=DwMFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGb
>> WY_wJYbW0WYiZvSXAJJKaaPhzWA&m=2wRqRZa37y_UI111jV40ovpjdh4Lfg
>> SjLQBcpgsP_wc&s=m5bkMpeBC8OWwE_Jo_duoxydLEvZ4mwVwxI0MmhYcew&e=>
>>
>> But sometimes more if our build system was not able to complete the
>> builds.
>>
>> The package version you see on the package landing page is the one
>> you'll get via biocLite(). Right now, when I do
>> biocLite("biotmleData")
>> in BioC release, I get biotmleData 1.1.0. When you tried this
>> yesterday
>> maybe you got version version 1.0.0 because version 1.1.0 hadn't
>> propagated yet.
>>
>> BTW bumping the version from 1.0.0 to 1.1.0 in release is not a good
>> idea. You should only bump the z part of the x.y.z version when you
>> make
>> changes in release. See
>>
>> https://bioconductor.org/developers/how-to/version-numbering/
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__
>> bioconductor.org_developers_how-2Dto_version-2Dnumbering_&
>> d=DwMFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW
>> 0WYiZvSXAJJKaaPhzWA&m=2wRqRZa37y_UI111jV40ovpjdh4LfgSjLQBcpg
>> sP_wc&s=w18Nz5ArlNGaTj9_sl0r2RDxazO6xYLMD9ej8ViRL3s&e=>
>>
>>
>> for more information on this.
>>
>> Cheers,
>> H.
>>
>> On 09/05/2017 11:56 AM, Nima Hejazi wrote:
>>
>> Hi Nitesh --
>>
>> Thanks very much for the help on this last week. I've been
>> investigating
>> the build problem displayed on the page you linked rather slowly
>> but have
>> reached a point where I now have a question:
>>
>> - The error appears to be due to an example data set not
>> being found.
>> This data set appears in the biotmleData package on Bioc.
>> I've updated
>> biotmleData on both the master and RELEASE_3_5 branches to
>> now contain that
>> data set, but when I install biotmleData via biocLite, I
>> still get version
>> 1.0.0 -- even though RELEASE_3_5 now contains 1.1.0 -- is
>> there something
>> that I am missing here?
>> - The GitHub repos for biotmle
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__
>> github.com_nhejazi_biotmle&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfh
>> Q&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2E
>> wKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=9YlcDD3Gj1idpcDfRv909X
>> LsL3YZwDSueYxrTqNA028&e=
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__
>> github.com_nhejazi_biotmle&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfh
>> Q&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2E
>> wKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=9YlcDD3Gj1idpcDfRv909X
>> LsL3YZwDSueYxrTqNA028&e=>
>> > and
>> biotmleData
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__
>> github.com_nhejazi_biotmleData&d=DwIGaQ&c=eRAMFD45gAfqt84VtB
>> cfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66f
>> Z2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=u3lrjrrPopzPue9JmH71D
>> SbjPoq1VnAuMUeoe1F_WaE&e=
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__
>> github.com_nhejazi_biotmleData&d=DwIGaQ&c=eRAMFD45gAfqt84VtB
>> cfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66f
>> Z2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=u3lrjrrPopzPue9JmH71D
>> SbjPoq1VnAuMUeoe1F_WaE&e=>
>> > contain both the
>> master and RELEASE_3_5 branch, both of which appear to be
>> fully
>> synced/updated wrt to Bioconductor (i.e., "git pull bioc
>> RELEASE_3_5"
>> returns "Everything up-to-date"), so I don't believe this
>> to be a sync
>> issue.
>>
>>
>> Any help in resolving this issue would be much appreciated.
>>
>> Warm Regards,
>> — Nima Hejazi
>>
>> --
>> Nima Hejazi
>> Doctoral Student
>> Division of Biostatistics
>> University of California, Berkeley
>> van der Laan Group
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__www.
>> stat.berkeley.edu_-7Elaan_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfh
>> Q&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2E
>> wKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=x8GhbJbVSpx7qQOlLfUK4_
>> ja-UIQqMdTomPAmUEBmNk&e=
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__www.
>> stat.berkeley.edu_-7Elaan_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfh
>> Q&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2E
>> wKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=x8GhbJbVSpx7qQOlLfUK4_
>> ja-UIQqMdTomPAmUEBmNk&e=>
>> > | Hubbard Group
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> hubbard.berkeley.edu_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK
>> 7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpT
>> cbLrkO_QfbE24evQfZMzU-mtdaA&s=t-f3XRwcu1B2X5ECo1iYUwZwjyNuP8
>> kQydG3IlkV1Og&e=
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> hubbard.berkeley.edu_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK
>> 7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpT
>> cbLrkO_QfbE24evQfZMzU-mtdaA&s=t-f3XRwcu1B2X5ECo1iYUwZwjyNuP8
>> kQydG3IlkV1Og&e=>
>> >
>> https://urldefense.proofpoint.com/v2/url?u=http-3A__www.stat
>> .berkeley.edu_-7Enhejazi&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfh
>> Q&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2E
>> wKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=BTn2lu5Zk5mBtu6-5sC843
>> o83lkNN0Z1Ow9YF01YnkQ&e=
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__www.
>> stat.berkeley.edu_-7Enhejazi&d=DwIGaQ&c=eRAMFD45gAfqt84VtBc
>> fhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ
>> 2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=BTn2lu5Zk5mBtu6-5sC843
>> o83lkNN0Z1Ow9YF01YnkQ&e=>
>> https://urldefense.proofpoint.com/v2/url?u=http-3A__nimaheja
>> zi.org&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbW
>> Y_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTcbLrkO_QfbE24ev
>> QfZMzU-mtdaA&s=9SgIZVMQy8w6hOO7ApRH-bDkc6CwLS8QSTp-diDl5yA&e=
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> nimahejazi.org&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAv
>> imeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTcbLrkO_
>> QfbE24evQfZMzU-mtdaA&s=9SgIZVMQy8w6hOO7ApRH-bDkc6CwLS8QSTp-diDl5yA&e=>
>> | Nima's blog
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> nimahejazi.org_blog_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7
>> q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTc
>> bLrkO_QfbE24evQfZMzU-mtdaA&s=IEHeHRRW-yikdVb8REoffz9x1ca4MrO
>> njvXgXvYC_40&e=
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> nimahejazi.org_blog_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7
>> q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTc
>> bLrkO_QfbE24evQfZMzU-mtdaA&s=IEHeHRRW-yikdVb8REoffz9x1ca4MrO
>> njvXgXvYC_40&e=>
>> >
>>
>> On Mon, Aug 28, 2017 at 11:58 AM, Turaga, Nitesh <
>> Nitesh.Turaga at roswellpark.org
>> <mailto:Nitesh.Turaga at roswellpark.org>> wrote:
>>
>> Hi Nima,
>>
>> Please check
>> https://urldefense.proofpoint.com/v2/url?u=http-3A__biocondu
>> ctor.org_checkResults_3.6_bioc-2DLATEST_&d=DwIGaQ&c=eRAM
>> FD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaP
>> hzWA&m=8mmx66fZ2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=Utq-cY0
>> IaWdeVTBbsfkOjDpn84D1xDqKaheeHXmgbNc&e=
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> bioconductor.org_checkResults_3.6_bioc-2DLATEST_&d=DwIGaQ&c=
>> eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJ
>> KaaPhzWA&m=8mmx66fZ2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=
>> Utq-cY0IaWdeVTBbsfkOjDpn84D1xDqKaheeHXmgbNc&e=>
>> biotmle/malbec1-buildsrc.html, it shows that the page was
>> generated on
>> Sunday. There is also a snapshot date when your repo was
>> captured by the
>> nightly build, and even the last commit.
>>
>> But this issue, is because your package has an ERROR, and
>> there hasn’t
>> been a version bump.
>>
>> Best,
>>
>> Nitesh
>>
>>
>>
>> On Aug 28, 2017, at 2:48 PM, Nima Hejazi
>> <nhejazi at berkeley.edu <mailto:nhejazi at berkeley.edu>>
>> wrote:
>>
>> Hello All ---
>>
>> After the relatively recent migration from SVN to git,
>> I've followed the
>> various guidelines for linking the GitHub repo
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__
>> github.com_nhejazi_biotmle&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfh
>> Q&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2E
>> wKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=9YlcDD3Gj1idpcDfRv909X
>> LsL3YZwDSueYxrTqNA028&e=
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__
>> github.com_nhejazi_biotmle&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfh
>> Q&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2E
>> wKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=9YlcDD3Gj1idpcDfRv909X
>> LsL3YZwDSueYxrTqNA028&e=>
>> > of my package biotmle to the
>> Bioconductor git server, I've pushed several important
>> updates to the
>>
>> Bioc
>>
>> master branch.
>>
>> My understanding is that the master branch represents
>> the development
>> version (in contrast to RELEASE_3_5). That said, it
>> appears that the
>>
>> package
>>
>> landing page for the Bioc development version
>> <https://urldefense.proofpoint
>> .com/v2/url?u=https-3A__www.bioconductor.org_packages_
>> devel_bioc_html_biotmle.html&d=DwIGaQ&c=eRAMFD45gAfqt84VtBc
>> fhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ
>> 2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=GbClVUyh6jrp_sWbrGF_QR
>> viL57GEEPl2z2E5LpN4e0&e=
>> <https://urldefense.proofpoint
>> .com/v2/url?u=https-3A__www.bioconductor.org_packages_
>> devel_bioc_html_biotmle.html&d=DwIGaQ&c=eRAMFD45gAfqt84VtBc
>> fhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ
>> 2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=GbClVUyh6jrp_sWbrGF_QR
>> viL57GEEPl2z2E5LpN4e0&e=>
>> >
>>
>> does
>>
>> not reflect the current status of the master branch of
>> the Bioc git
>>
>> history.
>>
>>
>> Perhaps I am missing something simple? Any help would be
>> much
>>
>> appreciated.
>>
>>
>> Warm Regards,
>> — Nima Hejazi
>>
>> --
>> Nima Hejazi
>> Doctoral Student
>> Division of Biostatistics
>> University of California, Berkeley
>> van der Laan Group
>> <https://urldefense.proofpoint
>> .com/v2/url?u=https-3A__www.stat.berkeley.edu_-7Elaan_&d=
>> DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0W
>> YiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTcbLrkO_QfbE24evQfZMzU-
>> mtdaA&s=x8GhbJbVSpx7qQOlLfUK4_ja-UIQqMdTomPAmUEBmNk&e=
>> <https://urldefense.proofpoint
>> .com/v2/url?u=https-3A__www.stat.berkeley.edu_-7Elaan_&d=
>> DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0W
>> YiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTcbLrkO_QfbE24evQfZMzU-
>> mtdaA&s=x8GhbJbVSpx7qQOlLfUK4_ja-UIQqMdTomPAmUEBmNk&e=>
>> > | Hubbard
>>
>> Group
>>
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> hubbard.berkeley.edu_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK
>> 7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpT
>> cbLrkO_QfbE24evQfZMzU-mtdaA&s=t-f3XRwcu1B2X5ECo1iYUwZwjyNuP8
>> kQydG3IlkV1Og&e=
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> hubbard.berkeley.edu_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK
>> 7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpT
>> cbLrkO_QfbE24evQfZMzU-mtdaA&s=t-f3XRwcu1B2X5ECo1iYUwZwjyNuP8
>> kQydG3IlkV1Og&e=>
>> >
>> https://urldefense.proofpoint.
>> com/v2/url?u=http-3A__www.stat.berkeley.edu_-7Enhejazi&d=
>> DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0W
>> YiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTcbLrkO_QfbE24evQfZMzU-
>> mtdaA&s=BTn2lu5Zk5mBtu6-5sC843o83lkNN0Z1Ow9YF01YnkQ&e=
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__www.
>> stat.berkeley.edu_-7Enhejazi&d=DwIGaQ&c=eRAMFD45gAfqt84VtBc
>> fhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ
>> 2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=BTn2lu5Zk5mBtu6-5sC843
>> o83lkNN0Z1Ow9YF01YnkQ&e=>
>> https://urldefense.proofpoint.
>> com/v2/url?u=http-3A__nimahejazi.org&d=DwIGaQ&c=eRAMFD45gAfq
>> t84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8
>> mmx66fZ2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=9SgIZVMQy8w6hOO
>> 7ApRH-bDkc6CwLS8QSTp-diDl5yA&e=
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> nimahejazi.org&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAv
>> imeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTcbLrkO_
>> QfbE24evQfZMzU-mtdaA&s=9SgIZVMQy8w6hOO7ApRH-bDkc6CwLS8QSTp-diDl5yA&e=>
>> | Nima's blog
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> nimahejazi.org_blog_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7
>> q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTc
>> bLrkO_QfbE24evQfZMzU-mtdaA&s=IEHeHRRW-yikdVb8REoffz9x1ca4MrO
>> njvXgXvYC_40&e=
>> <https://urldefense.proofpoint.com/v2/url?u=http-3A__
>> nimahejazi.org_blog_&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7
>> q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTc
>> bLrkO_QfbE24evQfZMzU-mtdaA&s=IEHeHRRW-yikdVb8REoffz9x1ca4MrO
>> njvXgXvYC_40&e=>
>> >
>>
>> [[alternative HTML version deleted]]
>>
>> _______________________________________________
>> Bioc-devel at r-project.org
>> <mailto:Bioc-devel at r-project.org> mailing list
>> https://urldefense.proofpoint.
>> com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2D
>> devel&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY
>> _wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTcbLrkO_QfbE24evQ
>> fZMzU-mtdaA&s=U0_dzOn2mTogJs3n5GXGqOeiiF1Wn_iOTUYQ4elmdeg&e=
>> <https://urldefense.proofpoint
>> .com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-
>> 2Ddevel&d=DwIGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGb
>> WY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8mmx66fZ2EwKOSpTcbLrkO_QfbE24e
>> vQfZMzU-mtdaA&s=U0_dzOn2mTogJs3n5GXGqOeiiF1Wn_iOTUYQ4elmdeg&e=>
>>
>>
>>
>>
>> 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 at r-project.org <mailto:Bioc-devel at r-project.org>
>> mailing list
>> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.et
>> hz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIGaQ&c=eRAMFD45gAfqt
>> 84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=8m
>> mx66fZ2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=U0_dzOn2mTogJs3n
>> 5GXGqOeiiF1Wn_iOTUYQ4elmdeg&e=
>> <https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.
>> ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIGaQ&c=eRAMFD45gAf
>> qt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=
>> 8mmx66fZ2EwKOSpTcbLrkO_QfbE24evQfZMzU-mtdaA&s=U0_dzOn2mTogJs
>> 3n5GXGqOeiiF1Wn_iOTUYQ4elmdeg&e=>
>>
>>
>> --
>> Hervé Pagès
>>
>> Program in Computational Biology
>> Division of Public Health Sciences
>> Fred Hutchinson Cancer Research Center
>> 1100 Fairview Ave. N, M1-B514
>> P.O. Box 19024
>> Seattle, WA 98109-1024
>>
>> E-mail: hpages at fredhutch.org <mailto:hpages at fredhutch.org>
>> Phone: (206) 667-5791 <tel:%28206%29%20667-5791>
>> Fax: (206) 667-1319 <tel:%28206%29%20667-1319>
>>
>>
>>
> --
> Hervé Pagès
>
> Program in Computational Biology
> Division of Public Health Sciences
> Fred Hutchinson Cancer Research Center
> 1100 Fairview Ave. N, M1-B514
> P.O. Box 19024
> Seattle, WA 98109-1024
>
> E-mail: hpages at fredhutch.org
> Phone: (206) 667-5791
> Fax: (206) 667-1319
>
[[alternative HTML version deleted]]
More information about the Bioc-devel
mailing list