Dear All, For the development version of a package, I thought that a new version of a package (a new version of the archive) was only made available if and when the build/check reports had been passed (for the corresponding OS). But now I think I am wrong. For a package I maintain, OncoSimulR, I am seeing package archives for the new version (2.13.1) that correspond to the changes I pushed a couple of days ago, on 2019-02-07 (https://bioconductor.org/packages/3.9/bioc/html/OncoSimulR.html); but the build report (https://bioconductor.org/checkResults/3.9/bioc-LATEST/OncoSimulR/) is still showing the build/check from the previous version (2.13.0), which was the one that existed at the time of the snapshot date (2019-02-06 17:01:03 -0500) of the report. Does this mean that a build bin was executed (I presume successfully) shortly after I pushed changes? I think it must, given the "Packaged" stamp in the DESCRIPTION file of the three compressed files (which shows "2019-02-08 01:19:24 UTC; biocbuild" and similar strings). What about the install and check tests? Sorry if this has been explained before. I've looked around but could not find any info about it. Thanks, R. -- Ramon Diaz-Uriarte Department of Biochemistry, Lab B-25 Facultad de Medicina Universidad Aut?noma de Madrid Arzobispo Morcillo, 4 28029 Madrid Spain Phone: +34-91-497-2412 Email: rdiaz02 at gmail.com ramon.diaz at iib.uam.es http://ligarto.org/rdiaz
[Bioc-devel] build/check reports and package version available for updated package
3 messages · Ramon Diaz-Uriarte, Hervé Pagès
Hi Ramon, We run the software builds every night and normally the build report gets updated every morning (for the people on the East Coast). However sometimes things don't work as expected. This time the builds went fine but the script that updates the report failed so that's why we still see the report from the day before. However, it seems that OncoSimulR 2.13.1 passed 'R CMD check' on all platforms and propagated so this is why you see it on the package landing page. I addressed the issue with the script so hopefully the report will get updated today around 10 am EST. We should see OncoSimulR 2.13.1 on this new report. Best, H.
On 2/9/19 01:13, Ramon Diaz-Uriarte wrote:
Dear All, For the development version of a package, I thought that a new version of a package (a new version of the archive) was only made available if and when the build/check reports had been passed (for the corresponding OS). But now I think I am wrong. For a package I maintain, OncoSimulR, I am seeing package archives for the new version (2.13.1) that correspond to the changes I pushed a couple of days ago, on 2019-02-07 (https://urldefense.proofpoint.com/v2/url?u=https-3A__bioconductor.org_packages_3.9_bioc_html_OncoSimulR.html&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=O0cn-X5Sr3_HhPWuSmTxh06I6kzACAP-AsUKsDNCnEU&s=y8Ni6d5RDqXiSzMWYbsOa6z3CQCHAnB7ViGb_iYe70Y&e=); but the build report (https://urldefense.proofpoint.com/v2/url?u=https-3A__bioconductor.org_checkResults_3.9_bioc-2DLATEST_OncoSimulR_&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=O0cn-X5Sr3_HhPWuSmTxh06I6kzACAP-AsUKsDNCnEU&s=rYQOEwOloojsIaUf3cwDap2VkbgGYyzQjuXOcHMFVmI&e=) is still showing the build/check from the previous version (2.13.0), which was the one that existed at the time of the snapshot date (2019-02-06 17:01:03 -0500) of the report. Does this mean that a build bin was executed (I presume successfully) shortly after I pushed changes? I think it must, given the "Packaged" stamp in the DESCRIPTION file of the three compressed files (which shows "2019-02-08 01:19:24 UTC; biocbuild" and similar strings). What about the install and check tests? Sorry if this has been explained before. I've looked around but could not find any info about it. Thanks, R. -- Ramon Diaz-Uriarte Department of Biochemistry, Lab B-25 Facultad de Medicina Universidad Aut?noma de Madrid Arzobispo Morcillo, 4 28029 Madrid Spain Phone: +34-91-497-2412 Email: rdiaz02 at gmail.com ramon.diaz at iib.uam.es https://urldefense.proofpoint.com/v2/url?u=http-3A__ligarto.org_rdiaz&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=O0cn-X5Sr3_HhPWuSmTxh06I6kzACAP-AsUKsDNCnEU&s=lwENxLhyf-d-fQHkWDDmw2N9LcJ9lgfIY10F4SMCJx8&e=
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Herv? Pag?s 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
1 day later
Hi Herve, Thanks a lot for the explanation; mystery solved. And yes, I can now see the updated report. Best, R.
On Sat, 09-February-2019, at 10:54:40, Pages, Herve <hpages at fredhutch.org> wrote:
Hi Ramon, We run the software builds every night and normally the build report gets updated every morning (for the people on the East Coast). However sometimes things don't work as expected. This time the builds went fine but the script that updates the report failed so that's why we still see the report from the day before. However, it seems that OncoSimulR 2.13.1 passed 'R CMD check' on all platforms and propagated so this is why you see it on the package landing page. I addressed the issue with the script so hopefully the report will get updated today around 10 am EST. We should see OncoSimulR 2.13.1 on this new report. Best, H. On 2/9/19 01:13, Ramon Diaz-Uriarte wrote:
Dear All, For the development version of a package, I thought that a new version of a package (a new version of the archive) was only made available if and when the build/check reports had been passed (for the corresponding OS). But now I think I am wrong. For a package I maintain, OncoSimulR, I am seeing package archives for the new version (2.13.1) that correspond to the changes I pushed a couple of days ago, on 2019-02-07 (https://urldefense.proofpoint.com/v2/url?u=https-3A__bioconductor.org_packages_3.9_bioc_html_OncoSimulR.html&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=O0cn-X5Sr3_HhPWuSmTxh06I6kzACAP-AsUKsDNCnEU&s=y8Ni6d5RDqXiSzMWYbsOa6z3CQCHAnB7ViGb_iYe70Y&e=); but the build report (https://urldefense.proofpoint.com/v2/url?u=https-3A__bioconductor.org_checkResults_3.9_bioc-2DLATEST_OncoSimulR_&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=O0cn-X5Sr3_HhPWuSmTxh06I6kzACAP-AsUKsDNCnEU&s=rYQOEwOloojsIaUf3cwDap2VkbgGYyzQjuXOcHMFVmI&e=) is still showing the build/check from the previous version (2.13.0), which was the one that existed at the time of the snapshot date (2019-02-06 17:01:03 -0500) of the report. Does this mean that a build bin was executed (I presume successfully) shortly after I pushed changes? I think it must, given the "Packaged" stamp in the DESCRIPTION file of the three compressed files (which shows "2019-02-08 01:19:24 UTC; biocbuild" and similar strings). What about the install and check tests? Sorry if this has been explained before. I've looked around but could not find any info about it. Thanks, R. -- Ramon Diaz-Uriarte Department of Biochemistry, Lab B-25 Facultad de Medicina Universidad Aut?noma de Madrid Arzobispo Morcillo, 4 28029 Madrid Spain Phone: +34-91-497-2412 Email: rdiaz02 at gmail.com ramon.diaz at iib.uam.es https://urldefense.proofpoint.com/v2/url?u=http-3A__ligarto.org_rdiaz&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=O0cn-X5Sr3_HhPWuSmTxh06I6kzACAP-AsUKsDNCnEU&s=lwENxLhyf-d-fQHkWDDmw2N9LcJ9lgfIY10F4SMCJx8&e=
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--
Ramon Diaz-Uriarte
Department of Biochemistry, Lab B-25
Facultad de Medicina
Universidad Aut?noma de Madrid
Arzobispo Morcillo, 4
28029 Madrid
Spain
Phone: +34-91-497-2412
Email: rdiaz02 at gmail.com
ramon.diaz at iib.uam.es
http://ligarto.org/rdiaz