- Release-team - mailman3.cels.anl.gov

Re: [Release-team] Status of modules for the Jan. 15 deadline
by Shane Canon 15 Jan '14

15 Jan '14

I don't recall updating the spreadsheet. However, my recollection is that we don't have any tests for AWE and Shock anyway. So I'm not sure how we validate it. I'm working on an issue related to shock, but I now think it may be related to the python request library. --Shane On Jan 14, 2014, at 3:26 PM, "Murphy-Olson, Daniel E." <dolson(a)mcs.anl.gov> wrote: > Miriam, > > I believe Shane was working on troubleshooting the shock issues, and he may know the details behind the anonymous edits. > > I haven't made any updates other than opening the new workspace service up. > Tomorrow we're going to need a big push to get everything to production. I'll be available all day. > > ---- > Daniel Murphy-Olson > Systems Administrator > Mathematics & Computer Science Division > Argonne National Laboratory > 630-252-0055 > > ________________________________________ > From: release-team-bounces(a)lists.kbase.us [release-team-bounces(a)lists.kbase.us] on behalf of Land, Miriam L. [landml(a)ornl.gov] > Sent: Tuesday, January 14, 2014 2:12 PM > To: release-team(a)kbase.us > Subject: [Release-team] Status of modules for the Jan. 15 deadline > > All, > > I haven't seen any status changes in the KBase Services spreadsheet since I left on Friday. Have there been any changes? > > I noticed that 'anonymous' marked Shock and Workspace deluxe as 'okay to deploy to production' and 'deployed on prod' without passing testing and Shock had no review of script standards, documentation, or release notes. I'm okay with having exceptions in our process but why are we doing it as anonymous and without explanation/documentation?? > > Miriam > _______________________________________________ > Release-team mailing list > Release-team(a)lists.kbase.us > https://lists.kbase.us/mailman/listinfo/release-team > _______________________________________________ > Release-team mailing list > Release-team(a)lists.kbase.us > https://lists.kbase.us/mailman/listinfo/release-team

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Re: [Release-team] Status of modules for the Jan. 15 deadline
by Murphy-Olson, Daniel E. 14 Jan '14

14 Jan '14

Miriam, I believe Shane was working on troubleshooting the shock issues, and he may know the details behind the anonymous edits. I haven't made any updates other than opening the new workspace service up. Tomorrow we're going to need a big push to get everything to production. I'll be available all day. ---- Daniel Murphy-Olson Systems Administrator Mathematics & Computer Science Division Argonne National Laboratory 630-252-0055 ________________________________________ From: release-team-bounces(a)lists.kbase.us [release-team-bounces(a)lists.kbase.us] on behalf of Land, Miriam L. [landml(a)ornl.gov] Sent: Tuesday, January 14, 2014 2:12 PM To: release-team(a)kbase.us Subject: [Release-team] Status of modules for the Jan. 15 deadline All, I haven't seen any status changes in the KBase Services spreadsheet since I left on Friday. Have there been any changes? I noticed that 'anonymous' marked Shock and Workspace deluxe as 'okay to deploy to production' and 'deployed on prod' without passing testing and Shock had no review of script standards, documentation, or release notes. I'm okay with having exceptions in our process but why are we doing it as anonymous and without explanation/documentation?? Miriam _______________________________________________ Release-team mailing list Release-team(a)lists.kbase.us https://lists.kbase.us/mailman/listinfo/release-team

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Status of modules for the Jan. 15 deadline
by Land, Miriam L. 14 Jan '14

14 Jan '14

All, I haven't seen any status changes in the KBase Services spreadsheet since I left on Friday. Have there been any changes? I noticed that 'anonymous' marked Shock and Workspace deluxe as 'okay to deploy to production' and 'deployed on prod' without passing testing and Shock had no review of script standards, documentation, or release notes. I'm okay with having exceptions in our process but why are we doing it as anonymous and without explanation/documentation?? Miriam

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Re: [Release-team] Updates to build/release process
by Land, Miriam L. 09 Jan '14

09 Jan '14

Sorry for the duplication!!!!! The first one I wrote disappeared for about an hour. Miriam On 1/9/14 10:23 AM, "Land, Miriam L." <landml(a)ornl.gov> wrote: >All, > >I have made updates to the build/release punch list and I encourage your >input. Please ignore the fact that it is still focused on the mini-build >cycle. I'm trying to get down the flow of the process, the needed >communication, and where decisions are made. > >https://docs.google.com/document/d/1QxZtbKUtAp_7Dj6ArEEaQvUcyl92xn80PzIVm_ >KtKLo/edit > >Things keep changing and I have reduced the description and the emails. >I'd like to get this to reflect the process that we would like to have in >today's environment. > >Thanks. > >Miriam >_______________________________________________ >Release-team mailing list >Release-team(a)lists.kbase.us >https://lists.kbase.us/mailman/listinfo/release-team

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Updates to build/release process
by Land, Miriam L. 09 Jan '14

09 Jan '14

All, I have made updates to the build/release punch list and I encourage your input. Please ignore the fact that it is still focused on the mini-build cycle. I'm trying to get down the flow of the process, the needed communication, and where decisions are made. https://docs.google.com/document/d/1QxZtbKUtAp_7Dj6ArEEaQvUcyl92xn80PzIVm_K… Things keep changing and I have reduced the description and the emails. I'd like to get this to reflect the process that we would like to have in today's environment. Thanks. Miriam

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Running a build
by Land, Miriam L. 09 Jan '14

09 Jan '14

All, I have made changes to the punch list for the build/release process and I encourage your input. Please ignore the fact that it is a "mini" build. I want to update the process flow, the decision points, and the communication process. https://docs.google.com/document/d/1QxZtbKUtAp_7Dj6ArEEaQvUcyl92xn80PzIVm_K… It should be a little simpler than the last version. Please help if you have improvements. Lets discuss if there are problems or misunderstandings. Thanks. Miriam

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assembly service for testing
by Fangfang Xia 08 Jan '14

08 Jan '14

Hi, The assembly service (assembly.git:master) is ready for testing. Thanks, Fangfang

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Command-line help issues [was Re: [Kbase-devel] Please review jira tickets in this email]
by N.L. Harris 07 Jan '14

07 Jan '14

Just going through some old mail… Most (possibly even all) of these tickets were not addressed. Tickets created by Lynn (having to do with command-line help): https://atlassian.kbase.us/issues/?jql=project%20%3D%20KBASE%20AND%20status… On November 19, 2013 at 6:02:22 AM, Thomas Brettin (brettin(a)mcs.anl.gov) wrote: > > As part of this build, can the listed developers review these > tickets. Please add the appropriate comment. Such as: > > "Thanks Lynn for taking the time to help improve the CLI, I made > the updates" > > or > > "This module should be deleted from KBase, it doesn't work and > there is no plan to make it work" > > or > > "Let me think about it" > > Anyways, you get the point. Lynn spent alot of time looking at > our stuff in an attempt to help make things better. Let's not see > her time wasted. > > Thank you, > Tom > > > KBASE-196 > Fizzy Service, command not found > > Andreas Wilke Lynn Schriml Open Unresolved 19/Jul/13 19/Jul/13 > Actions > KBASE-205 > PROM User Manual, Command Help documentation > > Michael Sneddon Lynn Schriml Open Unresolved 29/Jul/13 29/Jul/13 > Actions > KBASE-300 > Authorization Service Command Line Help documentation > > Steve Chan Lynn Schriml Open Unresolved 10/Sep/13 10/Sep/13 > Actions > KBASE-298 > Genotype Variation Service -- command line help documentation > > James Gurtowski Lynn Schriml Open Unresolved 10/Sep/13 10/Sep/13 > Actions > KBASE-314 > Network Services Command Line Help > > Pavel Novichkov Lynn Schriml Open Unresolved 12/Sep/13 12/Sep/13 > Actions > KBASE-340 > Command Line Help for Genome Annotation Service > > Robert D. Olson Lynn Schriml Open Unresolved 18/Sep/13 18/Sep/13 > Actions > KBASE-350 > CommandLineHelp for Expression Service Usage Statements > > Jason Baumohl Lynn Schriml Open Unresolved 20/Sep/13 20/Sep/13 > Actions > KBASE-279 > Moving Outreach User Manual files to production > > Thomas W. Brown Lynn Schriml Open Unresolved 05/Sep/13 28/Oct/13 > Actions > KBASE-428 > FBA Modeling Service CommandLIneHelp > > Christopher Henry Lynn Schriml Open Unresolved 28/Oct/13 28/Oct/13 > Actions > KBASE-430 > Communities QC CommandLineHelp > > Elizabeth Marie Marland Glass Lynn Schriml Open Unresolved > 28/Oct/13 28/Oct/13 > Actions > KBASE-429 > Workspace CommandLineHelp > > Christopher Henry Lynn Schriml Open Unresolved 28/Oct/13 13/Nov/13 > > _______________________________________________ > Kbase-devel mailing list > Kbase-devel(a)lists.kbase.us > https://lists.kbase.us/mailman/listinfo/kbase-devel >

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modules that (might) depend on workspace_service
by N.L. Harris 07 Jan '14

07 Jan '14

bash-3.2$ grep -r -i workspace_service */DEP* KBaseFBAModeling/DEPENDENCIES:workspace_service analysis_book/DEPENDENCIES:workspace_service experiment/DEPENDENCIES:workspace_service gwas/DEPENDENCIES:workspace_service meme/DEPENDENCIES:workspace_service prom_service/DEPENDENCIES:workspace_service ribo16s_pipeline/DEPENDENCIES:workspace_service bash-3.2$ analysis_book is obsolete experiment is no longer in use

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Re: [Release-team] [Kbase-devel] Janurary release - time to start gathering info
by Mundy, Michael B. (Mike) 06 Jan '14

06 Jan '14

I merged the wsdeluxe branch to master for the probabilistic annotation service and it is ready for deployment. Mike Mundy | Senior Analyst Programmer | Bioinformatics Systems Unit | 507-266-7232 | mundy.michael(a)mayo.edu Mayo Clinic | 200 First Street SW | Rochester, MN 55905 | mayoclinic.org <http://www.mayoclinic.org> On 1/3/14 10:18 AM, "Mundy, Michael B. (Mike)" <Mundy.Michael(a)mayo.edu> wrote: >Miriam, > >The probabilistic annotation module is ready for a deployment in the >January release. I've completed the changes for using the workspace >deluxe service and they are currently in a wsdeluxe branch in the git repo >for the module. I'm still waiting to hear when I should merge the branch >to master for the build. Please copy me and Matt Benedict on any >questions or help during the build. > >Mike Mundy | Senior Analyst Programmer | Bioinformatics >Systems Unit | 507-266-7232 | mundy.michael(a)mayo.edu >Mayo Clinic | 200 First Street SW | Rochester, MN 55905 | mayoclinic.org ><http://www.mayoclinic.org> > > > > >On 12/16/13 12:17 PM, "Brettin, Thomas S." <brettin(a)cels.anl.gov> wrote: > >>kbase devels, >> >>We will start a new release on Jan 6, the first day of the hack a thon at >>LBL. To start preparing, we need everyone to help by sending to Miriam >>when you think your module will be ready for a deployment. We have some >>deadlines to work towards, so lets start the relase process early. >> >>Miriam has agreed to take care of the overall tracking of the release >>process. She will be updating our lists and making sure communication >>works smoothly, so please give her your support if she reaches out to >>you. >> >>Also, consistent with previous builds, any modules that haven't been >>through at least one round of black box testing by the test team needs to >>be. Miriam will follow up on that front to. >> >> >>Thanks in advance, >>Tom >>_______________________________________________ >>Kbase-devel mailing list >>Kbase-devel(a)lists.kbase.us >>https://lists.kbase.us/mailman/listinfo/kbase-devel >

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