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gmod-cmap — Discussion of the CMAP comparative map viewer
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From: Scott C. <sc...@sc...> - 2013-12-12 21:07:11
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Hello, Time is running out to get the reduced registration fee for GMOD 2014 in San Diego next month (Jan 16-17): the deadline is December 16. The GMOD meeting is shaping up to be a really good meeting, including a keynote given by Andrew Su, as well as talks by * Ken Youens-Clark, creator of CMap,talking about a new project called Drunken Noodle * Richard Hayes on migrating from GBrowse to JBrowse * Dan MacLean on crowd sourcing genomics, including WebApollo with badges. For more information about the meeting, including a link to the registration page, see: http://gmod.org/wiki/Jan_2014_GMOD_Meeting I look forward to seeing you in sunny San Diego! Scott -- ------------------------------------------------------------------------ Scott Cain, Ph. D. scott at scottcain dot net GMOD Coordinator (http://gmod.org/) 216-392-3087 Ontario Institute for Cancer Research |
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From: berenicel <ber...@vo...> - 2012-09-13 15:24:23
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Hi, We have several maps and we have made the correspondances between them. The matrix of correspendences seems to have been correctly filled but unfortunately we cannot display them : when we display a map (with the map viewer) and want to add another map on the right or the left we get the following error message : Unmatched ( in regex; marked by <-- HERE in m/(^|:) 0=( <-- HERE Gh ($|:)/ at /usr/lib/perl5/site_perl/5.8.8/Bio/GMOD/CMap/Utils.pm line 1523 Is there anyone to help us ? Thanks. ___________________________________________________________ Une photo de Céline Dion fait scandale. Plus d'infos sur Voila.fr http://people.voila.fr/people/actu-stars/tv-cine-musique/celine-dion-une-de-ses-photos-fait-scandale-people_8484.html |
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From: Pierre C. <pie...@ho...> - 2012-06-26 10:43:46
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Hello, I'm trying to add CMap to my local GBrowse. But, when i use the bp_bulk_load_gff, it says : error loading Bio::GMOD::CMap::Utils. It seems that the subroutine next_number doesn't exist. What can I do in order to substitute this function ? Greetings Pierre CRESSANT |
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From: 谭涛 <ta...@ma...> - 2011-09-09 03:06:30
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Hi,
I want to link cmap to gbrowse,so I changed the $url in cmap.conf file(please read below).but it didn't link to gbrowse ,instead of keeping display the default cmap infomation.do i need to install something in the web server? thanks a lot.
TT
cmap version:1.01 ,Gbrowse version:2.03
cmap.conf:
<feature_type Chr_scaffold>
feature_type_acc Chr_scaffold
feature_type Chr_scaffold
default_rank 1
color black
shape span
drawing_lane 2
drawing_priority 1
feature_default_display
area_code <<EOF
$code=sprintf("onMouseOver=\"window.status='%s';return true\"",$feature->{'feature_name'});
$alt = "Scaffold: ".$feature->{'feature_name'}."; pos:".$feature->{'feature_start'}.(defined($feature->{'feature_stop'})?'-'.$feature->{'feature_stop'}:'');
$url=sprintf("http://114.255.28.31/cgi-bin/gb2/gbrowse/watermelon_latest/?name=%s",$feature->{'feature_name'});
EOF
</feature_type>
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From: Ken Youens-C. <ky...@gm...> - 2011-08-22 17:14:12
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Dear CMap users, As everyone on the CMap mailing list knows, CMap has not been updated in three years since the 1.01 release in July 2008. Last year I spent a few months kicking around some ideas for a 2.0 version, but I never had the sustained development time to really make it happen. I now am considering writing a grant to fund a couple years of full-time effort to produce a new 2.0 version with all the implied Web 2.0 goodness of a responsive, dynamic web application. I would only want to ask for money if I believe there is a real need for a new version of CMap. I can find more than a dozen sites running some version of CMap, and I wonder if some or all of these would be interested in contributing ideas to a proposed 2.0 version and upgrading to a new version should it become available. If I could submit letters of support with my grant application or could show a real desire by the community to have a new version of the software as well as a list of requested improvements, I believe it would greatly help the chances for funding. If you are interested, please contact me off-list (ky...@gm...). Thanks, ky |
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From: Dave C. <cle...@ne...> - 2011-02-02 06:20:59
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Hello all, Yesterday, we opened registration for the March 2011 GMOD Meeting (see http://gmod.oicr.on.ca/wiki/March_2011_GMOD_Meeting). *That meeting is part of a larger event, GMOD Americas 2011, that also includes several Satellite Meetings on March 7*, the day after the meeting ends. Satellite meetings are smaller groups of people meeting to discuss a common interest, or work on a common problem (think special interest groups / birds-of-a-feather). Unlike the GMOD Meeting, there is *no registration fee * for the Satellites, and you don't even need to go to any other GMOD Americas events to participate in the Satellites. *If you are in the area, or attending other GMOD Americas events, or are just very interested in the topic, we strongly encourage you to attend.* The current list of Satellites (see http://gmod.oicr.on.ca/wiki/Satellite_Meetings_-_GMOD_Americas_2011) includes: - *GMOD Evo Hackathon Followup*<http://gmod.oicr.on.ca/wiki/GMOD_Evo_Hackathon#March_2011_Satellite>, organized by Duke Leto <http://gmod.oicr.on.ca/wiki/User:Dukeleto>. A followup to the GMOD Evo Hackathon<http://gmod.oicr.on.ca/wiki/GMOD_Evo_Hackathon>held at NESCent in November 2011. You didn't to participate in the original event to participate in this followup. Also, if there is interest, this satellite can extend for more than one day. - *Customizing and Extending JBrowse<http://gmod.oicr.on.ca/wiki/JBrowse> *, organized by Mitch Skinner<http://gmod.oicr.on.ca/wiki/User:MitchSkinner> . JBrowse <http://gmod.oicr.on.ca/wiki/JBrowse> has a few different extension points, but they're not (yet) well-documented or widely used. The GMOD meeting would be a good time to review those APIs<http://gmod.oicr.on.ca/wiki/Glossary#API>, relate them to the things that people want to do with them, discuss any potential changes or new APIs to support specific use cases, and potentially start to implement an extension. - *GMOD Web services toolkit* <http://gmod.oicr.on.ca/wiki/GMOD_RPC_API>, organized by Josh Goodman <http://gmod.oicr.on.ca/wiki/User:Jogoodma>. Come to work on or discuss the GMOD Web services API and the toolkit<http://gmod.oicr.on.ca/wiki/GMOD_RPC_API> . - *GMOD in the Sequencing Center*<http://gmod.oicr.on.ca/wiki/GMOD_in_the_Sequencing_Center>, organized by Chris Hemmerich <http://gmod.oicr.on.ca/wiki/User:Chemmeri>, Dave Clements <http://gmod.oicr.on.ca/wiki/User:Clements>. Sequencing centers have tremendous bioinformatics needs that GMOD can help address. Attend this satellite to find out what other sequencing centers are doing with GMOD, and how GMOD can help you help your researchers. If you are interested in participating in these, please contact the organizers, and/or add your name to the satellite's participants list on the wiki. Satellites can be organized by anyone. If you have a topic you would like to cover, please add it to the list and announce it the appropriate mailing lists. Several previous satellites are written up on the GMOD wiki, if you want an idea of what happens at a satellite. Finally, please let me and Scott know if you have any questions. Thanks, and hope to see you in March! Dave C. -- http://gmod.org/wiki/GMOD_Americas_2011 http://gmod.org/wiki/GMOD_News http://usegalaxy.org/ |
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From: Dave C. G. H. D. <he...@gm...> - 2011-01-02 18:38:37
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Hello all, The application deadline for the 2011 GMOD Spring Training (http://gmod.org/wiki/2011_GMOD_Spring_Training) is the end of this coming Friday, January 7. Admission is competitive, so please apply by Friday to avoid being automatically placed on the waiting list. Details are below. Thanks, and happy new year! Dave C ------- Applications are now being accepted for the 2011 GMOD Spring Training course (http://gmod.org/wiki/2011_GMOD_Spring_Training), a five-day hands-on school aimed at teaching new GMOD administrators how to install, configure and integrate popular GMOD components. The course will be held March 8-12 at the US National Evolutionary Synthesis Center (NESCent) in Durham, North Carolina, as part of GMOD Americas 2011. These components will be covered: * Apollo - genome annotation editor * Chado - biological database schema * Galaxy - analysis and data integration framework * GBrowse - genome viewer * GBrowse_syn - synteny viewer * GFF3 - genome annotation file format and tools * InterMine - biological data mining system * JBrowse - next generation genome browser * MAKER - genome annotation pipeline * Tripal - web front end to Chado databases The deadline for applying is the end of Friday, January 7, 2011. Admission is competitive and is based on the strength of the application, especially the statement of interest. The 2010 school had over 60 applicants for the 25 slots. Any application received after deadline will be automatically placed on the waiting list. The course requires some knowledge of Linux as a prerequisite. The registration fee will be $265 (only $53 per day!). There will be a limited number of scholarships available. This may be the only GMOD School offered in 2011. If you are interested, you are strongly encouraged to apply by January 7. Links: http://gmod.org/wiki/2011_GMOD_Spring_Training http://gmod.org/wiki/GMOD_Americas_2011 http://www.nescent.org/ |
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From: Dave C. <cle...@ne...> - 2010-12-08 17:58:09
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Hello all, The feedback on the proposed lists was entirely positive. So, GMOD now has two new research-area based lists: *CoGePhy* - Comparative Genomics, Phylogeny, and related topics discussion list. Subscribe: https://lists.sourceforge.net/lists/listinfo/gmod-cogephy Archive: http://gmod.827538.n3.nabble.com/CoGePhy-f2036734.html *PhenDiver* - Phenotype, Natural Diversity, Population Genetics and related topics discussion list. Subscribe: https://lists.sourceforge.net/lists/listinfo/gmod-phendiver Archive: http://gmod.827538.n3.nabble.com/PhenDiver-f2036309.html If you are interested in these topics, please subscribe to the lists and then post any comments or questions that you just didn't know where to post before! Thanks, Dave C. On Tue, Nov 30, 2010 at 2:30 PM, Dave Clements <cle...@ne...> wrote: > Hello all, > > Several action items came out of the recent GMOD Evo Hackathon, including > the possible creation of new email lists. I'm CC'ing this to every GMOD > list that I think might care about the topics for the proposed new lists: > > *Proposed New Lists* > 1. Phenotype, Population, and Natural Diversity (PhenPopDiv, PPGaND?) > 2. Comparative Genomics and Phylogeny (CompGenPhylo)? > > Both of the proposed lists are about research areas, rather than specific > components. For example, anything about phenotypes, be it storing them > (Chado, InterMine, BioMart), visualizing them (GBrowse, JBrowse, Tripal, > ...), or anything else, would be appropriate for the PhenPopDiv list. > > This is both a strength and a weakness. If you care about one of these > research areas then you would now have a place to go to post questions and > information. However, if you care specifically and only about, say, > Phylogeny in Chado, then it is no longer clear where you should send emails. > The safest option would be to post to both gmod-schema and to CompGenPhylo. > > I think the advantages of the lists outweigh the drawbacks. However, I'd > like community input before doing anything. > > If you have opinions or suggested revisions (large or small), please > respond. > > Thanks, > > Dave C > > -- > http://gmod.org/wiki/GMOD_News > http://gmod.org/wiki/Calendar > http://gmod.org/wiki/Help_Desk_Feedback > -- http://gmod.org/wiki/GMOD_Americas_2011 http://gmod.org/wiki/GMOD_News http://gmod.org/wiki/Help_Desk_Feedback |
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From: Dave C. G. H. D. <he...@gm...> - 2010-12-04 00:41:50
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Applications are now being accepted for the 2011 GMOD Spring Training course a five-day hands-on school aimed at teaching new GMOD administrators how to install, configure and integrate popular GMOD components. The course will be held March 8-12 at the US National Evolutionary Synthesis Center (NESCent) in Durham, North Carolina, as part of GMOD Americas 2011. Links: * http://gmod.org/wiki/2011_GMOD_Spring_Training * http://gmod.org/wiki/GMOD_Americas_2011 * http://www.nescent.org/ These components will be covered: * Apollo - genome annotation editor * Chado - biological database schema * Galaxy - workflow system * GBrowse - genome viewer * GBrowse_syn - synteny viewer * GFF3 - genome annotation file format and tools * InterMine - biological data mining system * JBrowse - next generation genome browser * MAKER - genome annotation pipeline * Tripal - web front end to Chado databases The deadline for applying is the end of Friday, January 7, 2011. Admission is competitive and is based on the strength of the application, especially the statement of interest. The 2010 school had over 60 applicants for the 25 slots. Any application received after deadline will be automatically placed on the waiting list. The course requires some knowledge of Linux as a prerequisite. The registration fee will be $265 (only $53 per day!). There will be a limited number of scholarships available. This may be the only GMOD School offered in 2011. If you are interested, you are strongly encouraged to apply by January 7. Thanks, Dave Clements -- http://gmod.org/wiki/GMOD_Americas_2011 http://gmod.org/wiki/GMOD_News http://gmod.org/wiki/Help_Desk_Feedback |
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From: Dave C. <cle...@ne...> - 2010-11-30 22:30:38
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Hello all, Several action items came out of the recent GMOD Evo Hackathon, including the possible creation of new email lists. I'm CC'ing this to every GMOD list that I think might care about the topics for the proposed new lists: *Proposed New Lists* 1. Phenotype, Population, and Natural Diversity (PhenPopDiv, PPGaND?) 2. Comparative Genomics and Phylogeny (CompGenPhylo)? Both of the proposed lists are about research areas, rather than specific components. For example, anything about phenotypes, be it storing them (Chado, InterMine, BioMart), visualizing them (GBrowse, JBrowse, Tripal, ...), or anything else, would be appropriate for the PhenPopDiv list. This is both a strength and a weakness. If you care about one of these research areas then you would now have a place to go to post questions and information. However, if you care specifically and only about, say, Phylogeny in Chado, then it is no longer clear where you should send emails. The safest option would be to post to both gmod-schema and to CompGenPhylo. I think the advantages of the lists outweigh the drawbacks. However, I'd like community input before doing anything. If you have opinions or suggested revisions (large or small), please respond. Thanks, Dave C -- http://gmod.org/wiki/GMOD_News http://gmod.org/wiki/Calendar http://gmod.org/wiki/Help_Desk_Feedback |
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From: Dave C. G. H. D. <he...@gm...> - 2010-09-07 18:31:49
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Hello all, GMOD Europe 2010 (http://gmod.org/wiki/GMOD_Europe_2010) starts on Monday, 13 September, less than a week from now. This event runs for 4 days and includes: * September 2010 GMOD Meeting - has openings * GMOD Satellite Meetings - has openings * InterMine Workshop - has openings * BioMart Workshop - full (but you can get on the short waiting list) If you haven't already registered, please do so as soon as possible. This will assure you a seat and help us plan meeting logistics. See http://gmod.org/wiki/GMOD_Europe_2010 for details and a registration link. This is the last broadcast reminder I'll send out. Please let me know if you have any questions. Thanks, Dave C. -- http://gmod.org/wiki/GMOD_News http://gmod.org/wiki/GMOD_Europe_2010 http://hinv.jp/biocuration2010/ http://gmod.org/wiki/Help_Desk_Feedback |
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From: Dave C. G. H. D. <he...@gm...> - 2010-08-25 20:57:25
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Hello all, GMOD Europe 2010 (http://gmod.org/wiki/GMOD_Europe_2010) starts in less than two weeks. If you are planning on attending and haven't yet registered, then please do so in the next few days. The BioMart Workshop has only a few slots left, and the registration fee for the GMOD Meeting goes from £50 to £65 on 6 September. We are encouraging people to submit topic suggestions for the GMOD Meeting and the GMOD Satellite Meetings. We are also pleased to announce that Jason Swedlow of the University of Dundee will be the guest speaker at the GMOD Meeting. Jason will speak on "The Open Microscopy Environment: Open Informatics for Biological Imaging," a particularly timely topic as many researchers move into image intensive areas such as phenotypes and gene expression, and as high-throughput imaging platforms become available. There is still space available at all 4 events, and registration for the GMOD Satellite Meetings, InterMine Workshop and BioMart Workshop is free. Scott Cain and Dave Clements Links: http://gmod.org/wiki/GMOD_Europe_2010 http://gmod.org/wiki/September_2010_GMOD_Meeting http://gmod.org/wiki/Satellite_Meetings_-_GMOD_Europe_2010 http://gmod.org/wiki/InterMine_Workshop_-_GMOD_Europe_2010 http://gmod.org/wiki/BioMart_Workshop_-_GMOD_Europe_2010 |
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From: Dave C. G. H. D. <he...@gm...> - 2010-08-05 04:32:29
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GMOD Europe 2010 ================ 13-16 September 2010 Cambridge, UK http://gmod.org/wiki/GMOD_Europe_2010 We are pleased to announce GMOD Europe 2010, four days of GMOD events being held 13-16 September 2010, at the University of Cambridge. GMOD Europe 2010 includes: 1) GMOD Community Meeting, Monday & Tuesday: Project updates, developer and user presentations and best practices, project direction. 2) GMOD Satellite Meetings, Wednesday: Special interest groups where GMOD community members meet to discuss specific topics of interest. 3) InterMine Workshop, Wednesday: A one day workshop on installing, configuring and using the InterMine biological data warehouse system. 4) BioMart Workshop, Thursday: A one day workshop on using the BioMart biological data warehouse system, including accessing data through APIs. Registration is now open for these events. There is a £50 registration fee for the GMOD Meeting to cover catered lunches, coffee/tee breaks, and other expenses. Registration for all other events is free, but still required, as space is limited. These events are open to all: GMOD users, developers, prospective users, biologists, and computer scientists. For an idea of what goes on at GMOD meetings, see http://gmod.org/wiki/January_2010_GMOD_Meeting. See you in Cambridge! Scott Cain and Dave Clements PS: If you have topics you want to have covered (or you want to cover) at the GMOD Meeting, or at the Satellite Meetings, please add them to the wiki pages, or contact us. We are also asking for guest speaker nominations for the meeting. -- http://gmod.org/wiki/GMOD_News <http://gmod.org/wiki/GMOD_News>http://gmod.org/wiki/GMOD_Evo_Hackathon http://gmod.org/wiki/GMOD_Europe_2010 http://gmod.org/wiki/Help_Desk_Feedback |
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From: Dave C. G. H. D. <he...@gm...> - 2010-05-20 21:40:06
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Hi Abdul, I don't know of any CMap installations running under Windows (and no one has mentioned or asked about in the past 2 years). I don't think CMap uses any libraries that aren't available on Windows, so I believe it is theoretically possible. However, you might be the only CMap on Windows user out there. (Is there anyone out there who is running CMap on Windows?) All of the doc I can find is written for installing on Linux/Unix. To install CMap on Windows you would have to translate those instructions to their Windows equivalents. Dave C On Wed, May 19, 2010 at 2:51 AM, abdul rahman dannaoui <abo...@ho... > wrote: > hi > i want to ask if it's possible to use Cmap on a windows machine and, if > it's possible, how can i install it? > best regards > > Abdul rahman Dannaoui > > ------------------------------ > Hotmail: Trusted email with powerful SPAM protection. Sign up now.<https://signup.live.com/signup.aspx?id=60969> > > > ------------------------------------------------------------------------------ > > > _______________________________________________ > gmod-cmap mailing list > gmo...@li... > https://lists.sourceforge.net/lists/listinfo/gmod-cmap > > -- ===> PLEASE KEEP RESPONSES ON THE LIST <=== http://gmod.org/wiki/GMOD_News http://gmod.org/wiki/Calendar http://gmod.org/wiki/Help_Desk_Feedback |
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From: abdul r. d. <abo...@ho...> - 2010-05-19 09:51:24
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hi i want to ask if it's possible to use Cmap on a windows machine and, if it's possible, how can i install it? best regards Abdul rahman Dannaoui _________________________________________________________________ Hotmail: Trusted email with powerful SPAM protection. https://signup.live.com/signup.aspx?id=60969 |
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From: Kokulapalan <wi...@mu...> - 2010-04-28 01:26:12
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Hi all, I am a graduate student and have implemented CMap for a database of pine markers. I currently have two slightly different versions of the same map_set. I created automated name based correspondences using cmap_admin.pl tool. After I created the ANB correspondence, I reloaded the correspondence matrix. I tried to view the map and add another map to the left or right of the reference map, but I cannot select any map sets in the comparison menu below the map I'm using CMap version 1.01. I cannot pinpoint if its a configuration error or database error. Any suggestions or help would be greatly appreciated Thank you Regards Gokul -- Kokulapalan Wimalanathan Graduate Student 346 Peason Hall Botany Department Miami University Oxford, OH 45056 |
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From: Ken Youens-C. <kyc...@gm...> - 2010-04-06 13:19:17
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On Apr 5, 2010, at 11:54 PM, Zhi-Wei Lu wrote: > Hi CMAP expert, > > I wonder if there are configuration options for "balloon hover and balloon click" option for cmap, similar to the feature on gbrowse. > > I would appreciate if someone will point me to the right direction. Zhi-Wei, That option has never been implemented in CMap. You are welcome, of course, to hack the source to integrate it. My tentative work on a 2.0 version in SVG includes balloon hovers, but I don't know when (if ever) that will be done. -- Ken Youens-Clark kc...@cs... Gramene.org Project Manager Ware Lab/CSHL/USDA-ARS |
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From: Zhi-Wei Lu <zw...@uc...> - 2010-04-06 05:37:01
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Hi CMAP expert, I wonder if there are configuration options for "balloon hover and balloon click" option for cmap, similar to the feature on gbrowse. I would appreciate if someone will point me to the right direction. Thank you. |
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From: Dong Z. <zha...@gm...> - 2010-03-29 13:35:12
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Hi Ken, Thank you very much for your answer. Is there any way to use different color connection lines for different pairs of comparative maps? Best Regards, --Dong Zhang On Mon, Mar 29, 2010 at 8:16 AM, Ken Youens-Clark <kyc...@gm...>wrote: > On Mar 25, 2010, at 10:02 PM, Dong Zhang wrote: > > > Hi All, > > > > I have one question about correspondence. > > > > 1. There are three linkage groups L1, L2 and L3 in one map set. > > 2. L1 has correspondences in L2 and L3 individually. > > > > Cmap can’t display the complete images of L2 and L3 instead of two short > rectangles without marker names, if L2 and L3 are in the same side of L1. > > > > I would like to display the complete images with marker names which could > be incorporated into paper in such scenario. Does anyone have any idea about > this? Any suggestion will be appreciated. > > Dong, > > You can get the image you desire by opening the "Correspondence Options" > menu and selecting "No" for the option "Aggregate Correspondences." > > -- > Ken Youens-Clark > kc...@cs... > Gramene.org Project Manager > Ware Lab/CSHL/USDA-ARS > > |
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From: Ken Youens-C. <kyc...@gm...> - 2010-03-29 12:17:06
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On Mar 25, 2010, at 10:02 PM, Dong Zhang wrote: > Hi All, > > I have one question about correspondence. > > 1. There are three linkage groups L1, L2 and L3 in one map set. > 2. L1 has correspondences in L2 and L3 individually. > > Cmap can’t display the complete images of L2 and L3 instead of two short rectangles without marker names, if L2 and L3 are in the same side of L1. > > I would like to display the complete images with marker names which could be incorporated into paper in such scenario. Does anyone have any idea about this? Any suggestion will be appreciated. Dong, You can get the image you desire by opening the "Correspondence Options" menu and selecting "No" for the option "Aggregate Correspondences." -- Ken Youens-Clark kc...@cs... Gramene.org Project Manager Ware Lab/CSHL/USDA-ARS |
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From: Ken Youens-C. <kyc...@gm...> - 2010-03-29 12:09:23
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On Mar 26, 2010, at 6:57 PM, gmo...@li... wrote: > From: ran...@bi... > Date: March 26, 2010 6:45:33 PM CDT > To: gmo...@li... > Subject: File permissions on images > > > Hi, > > How can I change the permissions on all the temporary images created in the tmp directory for cmap. Mode 0400 is a little too strict for my requirements? > > Thanks, > > Randall Svancara > Systems Administrator/DBA/Developer > Main Bioinformatics Laboratory Randall, As long as the web user (often "nobody" or "daemon") can read/write the image directory, you're welcome to se the permissions however you feel best. E.g., you should also run the cron job to clean up old images, so that user will also need write privs. -- Ken Youens-Clark kc...@cs... Gramene.org Project Manager Ware Lab/CSHL/USDA-ARS |
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From: Dong Z. <zha...@gm...> - 2010-03-26 03:02:28
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Hi All, I have one question about correspondence. 1. There are three linkage groups L1, L2 and L3 in one map set. 2. L1 has correspondences in L2 and L3 individually. Cmap can’t display the complete images of L2 and L3 instead of two short rectangles without marker names, if L2 and L3 are in the same side of L1. I would like to display the complete images with marker names which could be incorporated into paper in such scenario. Does anyone have any idea about this? Any suggestion will be appreciated. Best Regards, --Dong Zhang |
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From: Dave C. G. H. D. <he...@gm...> - 2010-02-22 16:27:51
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Hello all, This is a reminder that the deadline for applications to the GMOD Logo Program (http://gmod.org/wiki/GMOD_Logo_Program) is March 1, one week from today. See the program wiki page (http://gmod.org/wiki/GMOD_Logo_Program) and below for details. Please let me know if you have any questions. Thanks, Dave C. PS: And the deadline for applying to 2010 GMOD Summer School Americas is TODAY! See http://gmod.org/wiki/2010_GMOD_Summer_School_-_Americas for details. On Thu, Feb 4, 2010 at 9:29 AM, Dave Clements, GMOD Help Desk <he...@gm... > wrote: > Hello all, > > Need a logo that tells people what your web site, database or GMOD > component is about? If your resource needs a logo then the GMOD Logo > Program (http://gmod.org/wiki/GMOD_Logo_Program) can help. > > > I am pleased to announce the first call for participation in the GMOD > Logo Program. This program is for GMOD users and developers that would > like have a custom designed logo for their web site, database or GMOD > component. The program pairs GMOD community members with students in > advanced design classes at colleges and universities. This spring we > will be working with a class at Linn-Benton Community College. > Participants will meet several times (remotely) over a 3 week period, > with the end result being a new logo for your resource. > > Participation is limited to non-profits, and costs US$75. If you are > interested, please see http://gmod.org/wiki/GMOD_Logo_Program for > additional details and requirements, and an application form. The > program is accepting applications until March 1. > > Thanks, > > Dave Clements > GMOD Help Desk > > PS: This program was inspired by ZFIN's success with its logo (see > http://zfin.org). ZFIN's excellent logo was created by working with a > design class at the University of Oregon. > > -- > Please keep responses on the list! > http://gmod.org/wiki/2010_GMOD_Summer_School_-_Americas > http://gmod.org/wiki/GMOD_Logo_Program > http://gmod.org/wiki/GMOD_News > Was this helpful? http://gmod.org/wiki/Help_Desk_Feedback > -- ===> PLEASE KEEP RESPONSES ON THE LIST <=== http://gmod.org/wiki/2010_GMOD_Summer_School_-_Americas http://gmod.org/wiki/GMOD_Logo_Program http://gmod.org/wiki/GMOD_News Was this helpful? http://gmod.org/wiki/Help_Desk_Feedback |
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From: Dave C. G. H. D. <he...@gm...> - 2010-02-16 22:56:12
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Hello all, This is a reminder that the deadline for applying to the 2010 GMOD Summer School - Americas is the end of the day on Monday, February 22, which is now less than a week away. Any applications received after that will automatically be placed on the waiting list. Admission is competitive and is based on the strength of the application, especially the statement of interest. See http://gmod.org/wiki/2010_GMOD_Summer_School_-_Americas for additional information. Thanks, Dave Clements On Fri, Jan 29, 2010 at 1:58 PM, Dave Clements, GMOD Help Desk <he...@gm...> wrote: > Hello all, > > I am pleased to announce that we are now accepting applications for: > > 2010 GMOD Summer School - Americas > 6-9 May 2010 > NESCent, Durham, NC, USA > http://gmod.org/wiki/2010_GMOD_Summer_School_-_Americas > > This will be a hands-on multi-day course aimed at teaching new GMOD > users/administrators how to get GMOD Components up and running. The > course will introduce participants to the GMOD project and then focus > on installation, configuration and integration of popular GMOD > Components. The course will be held May 6-9, at NESCent in Durham, NC. > > These components will be covered: > * Apollo - genome annotation editor > * Chado - a modular and extensible database schema > * Galaxy - workflow system > * GBrowse - the Generic Genome Browser > * GBrowse_syn - A generic synteny browser > * JBrowse - genome browser > * MAKER - genome annotation pipeline > * Tripal - web front end for Chado > > The deadline for applying is the end of Friday, February 22. Admission > is competitive and is based on the strength of the application > (especially the statement of interest). In 2009 there were over 50 > applications for the 25 slots. Any applications received after the > deadline will be placed on the waiting list. > > See the course page for details and an application link: > http://gmod.org/wiki/2010_GMOD_Summer_School_-_Americas > > Thanks, > > Dave Clements > GMOD Help Desk > > PS: We are also investigating holding a GMOD course in the > Asia/Pacific region, sometime this fall. Watch the GMOD mailing lists > and the GMOD News page/RSS feed for updates. > -- > Please keep responses on the list! > http://gmod.org/wiki/2010_GMOD_Summer_School_-_Americas > http://gmod.org/wiki/GMOD_News > Was this helpful? http://gmod.org/wiki/Help_Desk_Feedback > -- ===> PLEASE KEEP RESPONSES ON THE LIST <=== http://gmod.org/wiki/2010_GMOD_Summer_School_-_Americas http://gmod.org/wiki/GMOD_Logo_Program http://gmod.org/wiki/GMOD_News Was this helpful? http://gmod.org/wiki/Help_Desk_Feedback |
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