November 2011 - Microbe - mailman3.cels.anl.gov

Re: [Microbe] February Users meeting
by Adam Paul Arkin 29 Nov '11

29 Nov '11

Sure...but board members can be vision folk.. Stakeholders need to have skin in the game. Please excuse any terseness or errors. This is sent from my mobile. On Nov 29, 2011, at 12:26 PM, "Elizabeth M. Glass" <marland(a)mcs.anl.gov> wrote: > From email chats with Bob and Brian, we would say yes, but would encourage folks to branch out to others. > > Adam - your thoughts? > > Elizabeth > > ----- Original Message ----- > From: Dylan Chivian <dcchivian(a)lbl.gov> > To: Elizabeth M. Glass <marland(a)mcs.anl.gov> > Cc: Paramvir Dehal <psdehal(a)lbl.gov>, Adam Arkin <aparkin(a)lbl.gov>, kbase-microcomm(a)lists.kbase.us, KBase Microbes List <Microbe(a)lists.kbase.us> > Sent: Tue, 29 Nov 2011 14:20:17 -0600 (CST) > Subject: Re: [Microbe] February Users meeting > > Can there be overlap between governance board and stakeholders? > > - dylan > > > On Tue, Nov 29, 2011 at 12:18 PM, Elizabeth M. Glass <marland(a)mcs.anl.gov>wrote: > >> Hi Dylan, >> >> We have a Google document in the Outreach collection that has a listing. >> Sadly, people have been very slow in providing this list. >> >> What was asked, was rather than us inviting arbitrary people from the BRCs >> and U Kbase projects, you as lead/co-lead provide a list of individuals >> that you think will form good collaborative power users/developers for >> KBase .... and are folks that will be enthusiastic about coming to the >> users meeting in February. >> >> I will inform the rest of the Outreach group of your invitations to >> Patrick and Steve. >> >> Elizabeth >> >> ----- Original Message ----- >> From: Dylan Chivian <dcchivian(a)lbl.gov> >> To: Paramvir Dehal <psdehal(a)lbl.gov>, Adam Arkin <aparkin(a)lbl.gov> >> Cc: kbase-microcomm(a)lists.kbase.us, KBase Microbes List < >> Microbe(a)lists.kbase.us> >> Sent: Tue, 29 Nov 2011 13:47:58 -0600 (CST) >> Subject: Re: [Microbe] February Users meeting >> >> Who is already on the list of targeted stakeholders? Where is it being >> maintained? How many stakeholders of each type should attend? I've >> invited Patrik D'haeseleer and Steve Singer, so that's 2 for Microbial >> Communities. >> >> Thanks, >> - Dylan >> >> >> On Tue, Nov 29, 2011 at 11:11 AM, Paramvir Dehal <psdehal(a)lbl.gov> wrote: >> >>> Hi guys, >>> >>> Kbase is planning on having a Users/Targeted Stakeholder Workshop on >>> Sunday, Feb 26th noon- 5pm. This is the day before the DOE 2012 >>> Genomic Science Meeting (26-29). Right now, the plan is to have about >>> 40 attendees and, at this point, I'm not sure how many Kbase Microbes >>> members will be asked to attend. >>> >>> Please let me know if you are planning on attending the DOE Genomics >>> Science meeting and hold off on making your travel arrangements until >>> I find out from Bob how many people from the Microbes group can come. >>> >>> Also, if you have any more suggestions of Targeted Stakeholders, today >>> is the last day to send them to me. >>> >>> Paramvir >>> _______________________________________________ >>> Microbe mailing list >>> Microbe(a)lists.kbase.us >>> https://lists.kbase.us/mailman/listinfo/microbe >>> >> >> >

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Re: [Microbe] February Users meeting
by Elizabeth M. Glass 29 Nov '11

29 Nov '11

>From email chats with Bob and Brian, we would say yes, but would encourage folks to branch out to others. Adam - your thoughts? Elizabeth ----- Original Message ----- From: Dylan Chivian <dcchivian(a)lbl.gov> To: Elizabeth M. Glass <marland(a)mcs.anl.gov> Cc: Paramvir Dehal <psdehal(a)lbl.gov>, Adam Arkin <aparkin(a)lbl.gov>, kbase-microcomm(a)lists.kbase.us, KBase Microbes List <Microbe(a)lists.kbase.us> Sent: Tue, 29 Nov 2011 14:20:17 -0600 (CST) Subject: Re: [Microbe] February Users meeting Can there be overlap between governance board and stakeholders? - dylan On Tue, Nov 29, 2011 at 12:18 PM, Elizabeth M. Glass <marland(a)mcs.anl.gov>wrote: > Hi Dylan, > > We have a Google document in the Outreach collection that has a listing. > Sadly, people have been very slow in providing this list. > > What was asked, was rather than us inviting arbitrary people from the BRCs > and U Kbase projects, you as lead/co-lead provide a list of individuals > that you think will form good collaborative power users/developers for > KBase .... and are folks that will be enthusiastic about coming to the > users meeting in February. > > I will inform the rest of the Outreach group of your invitations to > Patrick and Steve. > > Elizabeth > > ----- Original Message ----- > From: Dylan Chivian <dcchivian(a)lbl.gov> > To: Paramvir Dehal <psdehal(a)lbl.gov>, Adam Arkin <aparkin(a)lbl.gov> > Cc: kbase-microcomm(a)lists.kbase.us, KBase Microbes List < > Microbe(a)lists.kbase.us> > Sent: Tue, 29 Nov 2011 13:47:58 -0600 (CST) > Subject: Re: [Microbe] February Users meeting > > Who is already on the list of targeted stakeholders? Where is it being > maintained? How many stakeholders of each type should attend? I've > invited Patrik D'haeseleer and Steve Singer, so that's 2 for Microbial > Communities. > > Thanks, > - Dylan > > > On Tue, Nov 29, 2011 at 11:11 AM, Paramvir Dehal <psdehal(a)lbl.gov> wrote: > > > Hi guys, > > > > Kbase is planning on having a Users/Targeted Stakeholder Workshop on > > Sunday, Feb 26th noon- 5pm. This is the day before the DOE 2012 > > Genomic Science Meeting (26-29). Right now, the plan is to have about > > 40 attendees and, at this point, I'm not sure how many Kbase Microbes > > members will be asked to attend. > > > > Please let me know if you are planning on attending the DOE Genomics > > Science meeting and hold off on making your travel arrangements until > > I find out from Bob how many people from the Microbes group can come. > > > > Also, if you have any more suggestions of Targeted Stakeholders, today > > is the last day to send them to me. > > > > Paramvir > > _______________________________________________ > > Microbe mailing list > > Microbe(a)lists.kbase.us > > https://lists.kbase.us/mailman/listinfo/microbe > > > >

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Re: [Microbe] February Users meeting
by Dylan Chivian 29 Nov '11

29 Nov '11

Can there be overlap between governance board and stakeholders? - dylan On Tue, Nov 29, 2011 at 12:18 PM, Elizabeth M. Glass <marland(a)mcs.anl.gov>wrote: > Hi Dylan, > > We have a Google document in the Outreach collection that has a listing. > Sadly, people have been very slow in providing this list. > > What was asked, was rather than us inviting arbitrary people from the BRCs > and U Kbase projects, you as lead/co-lead provide a list of individuals > that you think will form good collaborative power users/developers for > KBase .... and are folks that will be enthusiastic about coming to the > users meeting in February. > > I will inform the rest of the Outreach group of your invitations to > Patrick and Steve. > > Elizabeth > > ----- Original Message ----- > From: Dylan Chivian <dcchivian(a)lbl.gov> > To: Paramvir Dehal <psdehal(a)lbl.gov>, Adam Arkin <aparkin(a)lbl.gov> > Cc: kbase-microcomm(a)lists.kbase.us, KBase Microbes List < > Microbe(a)lists.kbase.us> > Sent: Tue, 29 Nov 2011 13:47:58 -0600 (CST) > Subject: Re: [Microbe] February Users meeting > > Who is already on the list of targeted stakeholders? Where is it being > maintained? How many stakeholders of each type should attend? I've > invited Patrik D'haeseleer and Steve Singer, so that's 2 for Microbial > Communities. > > Thanks, > - Dylan > > > On Tue, Nov 29, 2011 at 11:11 AM, Paramvir Dehal <psdehal(a)lbl.gov> wrote: > > > Hi guys, > > > > Kbase is planning on having a Users/Targeted Stakeholder Workshop on > > Sunday, Feb 26th noon- 5pm. This is the day before the DOE 2012 > > Genomic Science Meeting (26-29). Right now, the plan is to have about > > 40 attendees and, at this point, I'm not sure how many Kbase Microbes > > members will be asked to attend. > > > > Please let me know if you are planning on attending the DOE Genomics > > Science meeting and hold off on making your travel arrangements until > > I find out from Bob how many people from the Microbes group can come. > > > > Also, if you have any more suggestions of Targeted Stakeholders, today > > is the last day to send them to me. > > > > Paramvir > > _______________________________________________ > > Microbe mailing list > > Microbe(a)lists.kbase.us > > https://lists.kbase.us/mailman/listinfo/microbe > > > >

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Re: [Microbe] February Users meeting
by Elizabeth M. Glass 29 Nov '11

29 Nov '11

Hi Dylan, We have a Google document in the Outreach collection that has a listing. Sadly, people have been very slow in providing this list. What was asked, was rather than us inviting arbitrary people from the BRCs and U Kbase projects, you as lead/co-lead provide a list of individuals that you think will form good collaborative power users/developers for KBase .... and are folks that will be enthusiastic about coming to the users meeting in February. I will inform the rest of the Outreach group of your invitations to Patrick and Steve. Elizabeth ----- Original Message ----- From: Dylan Chivian <dcchivian(a)lbl.gov> To: Paramvir Dehal <psdehal(a)lbl.gov>, Adam Arkin <aparkin(a)lbl.gov> Cc: kbase-microcomm(a)lists.kbase.us, KBase Microbes List <Microbe(a)lists.kbase.us> Sent: Tue, 29 Nov 2011 13:47:58 -0600 (CST) Subject: Re: [Microbe] February Users meeting Who is already on the list of targeted stakeholders? Where is it being maintained? How many stakeholders of each type should attend? I've invited Patrik D'haeseleer and Steve Singer, so that's 2 for Microbial Communities. Thanks, - Dylan On Tue, Nov 29, 2011 at 11:11 AM, Paramvir Dehal <psdehal(a)lbl.gov> wrote: > Hi guys, > > Kbase is planning on having a Users/Targeted Stakeholder Workshop on > Sunday, Feb 26th noon- 5pm. This is the day before the DOE 2012 > Genomic Science Meeting (26-29). Right now, the plan is to have about > 40 attendees and, at this point, I'm not sure how many Kbase Microbes > members will be asked to attend. > > Please let me know if you are planning on attending the DOE Genomics > Science meeting and hold off on making your travel arrangements until > I find out from Bob how many people from the Microbes group can come. > > Also, if you have any more suggestions of Targeted Stakeholders, today > is the last day to send them to me. > > Paramvir > _______________________________________________ > Microbe mailing list > Microbe(a)lists.kbase.us > https://lists.kbase.us/mailman/listinfo/microbe >

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Re: [Microbe] February Users meeting
by Dylan Chivian 29 Nov '11

29 Nov '11

Who is already on the list of targeted stakeholders? Where is it being maintained? How many stakeholders of each type should attend? I've invited Patrik D'haeseleer and Steve Singer, so that's 2 for Microbial Communities. Thanks, - Dylan On Tue, Nov 29, 2011 at 11:11 AM, Paramvir Dehal <psdehal(a)lbl.gov> wrote: > Hi guys, > > Kbase is planning on having a Users/Targeted Stakeholder Workshop on > Sunday, Feb 26th noon- 5pm. This is the day before the DOE 2012 > Genomic Science Meeting (26-29). Right now, the plan is to have about > 40 attendees and, at this point, I'm not sure how many Kbase Microbes > members will be asked to attend. > > Please let me know if you are planning on attending the DOE Genomics > Science meeting and hold off on making your travel arrangements until > I find out from Bob how many people from the Microbes group can come. > > Also, if you have any more suggestions of Targeted Stakeholders, today > is the last day to send them to me. > > Paramvir > _______________________________________________ > Microbe mailing list > Microbe(a)lists.kbase.us > https://lists.kbase.us/mailman/listinfo/microbe >

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Re: [Microbe] February Users meeting
by Paramvir Dehal 29 Nov '11

29 Nov '11

I forgot to mention that if you have any suggestions for our Kbase Governance Board, please send those as well. Paramvir On Tue, Nov 29, 2011 at 11:11 AM, Paramvir Dehal <psdehal(a)lbl.gov> wrote: > Hi guys, > > Kbase is planning on having a Users/Targeted Stakeholder Workshop on > Sunday, Feb 26th noon- 5pm. This is the day before the DOE 2012 > Genomic Science Meeting (26-29). Right now, the plan is to have about > 40 attendees and, at this point, I'm not sure how many Kbase Microbes > members will be asked to attend. > > Please let me know if you are planning on attending the DOE Genomics > Science meeting and hold off on making your travel arrangements until > I find out from Bob how many people from the Microbes group can come. > > Also, if you have any more suggestions of Targeted Stakeholders, today > is the last day to send them to me. > > Paramvir

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February Users meeting
by Paramvir Dehal 29 Nov '11

29 Nov '11

Hi guys, Kbase is planning on having a Users/Targeted Stakeholder Workshop on Sunday, Feb 26th noon- 5pm. This is the day before the DOE 2012 Genomic Science Meeting (26-29). Right now, the plan is to have about 40 attendees and, at this point, I'm not sure how many Kbase Microbes members will be asked to attend. Please let me know if you are planning on attending the DOE Genomics Science meeting and hold off on making your travel arrangements until I find out from Bob how many people from the Microbes group can come. Also, if you have any more suggestions of Targeted Stakeholders, today is the last day to send them to me. Paramvir

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Re: [Microbe] Wiki for UI mock ups, etc
by Ben Bowen 28 Nov '11

28 Nov '11

Is anyone else unable to add pages to the wiki? Here are my slides that I already sent to some of you before the UI meeting. -------------- Email: BPBowen(a)lbl.gov Office: 510-486-5138 Cell: 480-225-2341 MS 84RO171, Lawrence Berkeley Lab On Mon, Nov 28, 2011 at 2:17 PM, Adam Arkin <aparkin(a)lbl.gov> wrote: > Hi Guys, > > Just so it is available I put my mockup at > https://trac.kbase.us/projects/kbase/wiki/UIUserExperience. > > Adam > > -- > Adam Paul Arkin > Dean A. Richard Newton Memorial Chair > ------------------------------------- > Director, Physical Biosciences Division > E.O. Lawrence Berkeley National Laboratory > > Professor, Department of Bioengineering > University of California > Berkeley, CA, 94720 > > Director, Berkeley Synthetic Biology Institute, http://synbio.berkeley.edu > PI and Co-Director, Virtual Institute of Microbial Stress and Survival, > http://vimss.lbl.gov > Director of Bioinformatics, The Joint Bioenergy Institute, > http://jbei.lbl.gov > Investigator, Energy Biosciences Institute, > http://energybiosciencesinstitute.org > Head, Synthetic Biology, Physical Biosciences Division, Lawrence Berkeley > National Laboratory > > > Office: 309B Hildebrand Hall (Berkeley Campus) > Mailing address: > E.O. Lawrence Berkeley National Laboratory > 1 Cyclotron Road, MS Stanley-922 > Berkeley, CA 94720 > > Contact: > W: http://genomics.lbl.gov > V: 510-495-2366 > C: 510-206-1389 > F: 510-486-6219 > > Assistant: > Gwyneth A. Terry > V: 510-495-2116 > E: GATerry(a)lbl.gov > ------------------------------------- > > > > > > > > On 11/28/11 12:18 PM, "Christopher Henry" <chrisshenry(a)gmail.com> wrote: > >>Hi all, >> >>A couple of people asked me for the address of the KBase wiki with our >>mockups. Here it is: >> >>This page has all the various pages on the wiki: >>https://trac.kbase.us/projects/kbase/wiki/TitleIndex >> >>This page has my model viewer mockup: >>https://trac.kbase.us/projects/kbase/wiki/UIMockupsModelViewer >> >>Note, you can't access the wiki until you create an account, but it's a >>painless process so go ahead and do it. >> >>If you have other mockups you're making, please either post them onto the >>wiki, or send them to me or to the Microbes list. I'm happy to help post >>mockups on the wiki myself. I've gotten pretty good at it. >> >>Best, >>Chris >> >>-----Original Message----- >>From: Aaron Best [mailto:[email protected]] >>Sent: Monday, November 28, 2011 1:18 PM >>To: Christopher Henry >>Subject: Wiki for UI mock ups, etc >> >>Hi Chris, >> >>Listening in on the call right now. Can you send me the link to the >>tracking >>wiki you are talking about? >> >>Also, can we discuss some of the phenotype additions/notions you're >>talking >>about at some point? >> >>Thanks, >> >>Aaron >> >>_______________________________________________ >>Microbe mailing list >>Microbe(a)lists.kbase.us >>https://lists.kbase.us/mailman/listinfo/microbe > > > _______________________________________________ > Microbe mailing list > Microbe(a)lists.kbase.us > https://lists.kbase.us/mailman/listinfo/microbe >

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Re: [Microbe] Wiki for UI mock ups, etc
by Adam Arkin 28 Nov '11

28 Nov '11

Hi Guys, Just so it is available I put my mockup at https://trac.kbase.us/projects/kbase/wiki/UIUserExperience. Adam -- Adam Paul Arkin Dean A. Richard Newton Memorial Chair ------------------------------------- Director, Physical Biosciences Division E.O. Lawrence Berkeley National Laboratory Professor, Department of Bioengineering University of California Berkeley, CA, 94720 Director, Berkeley Synthetic Biology Institute, http://synbio.berkeley.edu PI and Co-Director, Virtual Institute of Microbial Stress and Survival, http://vimss.lbl.gov Director of Bioinformatics, The Joint Bioenergy Institute, http://jbei.lbl.gov Investigator, Energy Biosciences Institute, http://energybiosciencesinstitute.org Head, Synthetic Biology, Physical Biosciences Division, Lawrence Berkeley National Laboratory Office: 309B Hildebrand Hall (Berkeley Campus) Mailing address: E.O. Lawrence Berkeley National Laboratory 1 Cyclotron Road, MS Stanley-922 Berkeley, CA 94720 Contact: W: http://genomics.lbl.gov V: 510-495-2366 C: 510-206-1389 F: 510-486-6219 Assistant: Gwyneth A. Terry V: 510-495-2116 E: GATerry(a)lbl.gov ------------------------------------- On 11/28/11 12:18 PM, "Christopher Henry" <chrisshenry(a)gmail.com> wrote: >Hi all, > >A couple of people asked me for the address of the KBase wiki with our >mockups. Here it is: > >This page has all the various pages on the wiki: >https://trac.kbase.us/projects/kbase/wiki/TitleIndex > >This page has my model viewer mockup: >https://trac.kbase.us/projects/kbase/wiki/UIMockupsModelViewer > >Note, you can't access the wiki until you create an account, but it's a >painless process so go ahead and do it. > >If you have other mockups you're making, please either post them onto the >wiki, or send them to me or to the Microbes list. I'm happy to help post >mockups on the wiki myself. I've gotten pretty good at it. > >Best, >Chris > >-----Original Message----- >From: Aaron Best [mailto:[email protected]] >Sent: Monday, November 28, 2011 1:18 PM >To: Christopher Henry >Subject: Wiki for UI mock ups, etc > >Hi Chris, > >Listening in on the call right now. Can you send me the link to the >tracking >wiki you are talking about? > >Also, can we discuss some of the phenotype additions/notions you're >talking >about at some point? > >Thanks, > >Aaron > >_______________________________________________ >Microbe mailing list >Microbe(a)lists.kbase.us >https://lists.kbase.us/mailman/listinfo/microbe

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Re: [Microbe] Wiki for UI mock ups, etc
by Christopher Henry 28 Nov '11

28 Nov '11

Hi all, A couple of people asked me for the address of the KBase wiki with our mockups. Here it is: This page has all the various pages on the wiki: https://trac.kbase.us/projects/kbase/wiki/TitleIndex This page has my model viewer mockup: https://trac.kbase.us/projects/kbase/wiki/UIMockupsModelViewer Note, you can't access the wiki until you create an account, but it's a painless process so go ahead and do it. If you have other mockups you're making, please either post them onto the wiki, or send them to me or to the Microbes list. I'm happy to help post mockups on the wiki myself. I've gotten pretty good at it. Best, Chris -----Original Message----- From: Aaron Best [mailto:[email protected]] Sent: Monday, November 28, 2011 1:18 PM To: Christopher Henry Subject: Wiki for UI mock ups, etc Hi Chris, Listening in on the call right now. Can you send me the link to the tracking wiki you are talking about? Also, can we discuss some of the phenotype additions/notions you're talking about at some point? Thanks, Aaron

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