January 2008 - beg-bogas@psb.ugent.be

[Beg-bogas] update error
by liste＠hagrid.fvms.ugent.be 25 Jan '08

25 Jan '08

2008/01/25 01:00:06 An error occured while starting update of from !! Error message below: DBI connect('bogas_bogas:psbsql01:3306','bogas',...) failed: Can't connect to MySQL server on 'psbsql01' (111) at /www/group/biocomp/extra/bioinformatics_prod/webtools/annot/src/perl/modules/BOGAS/DB.pm line 470

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[Beg-bogas] update error
by liste＠hagrid.fvms.ugent.be 25 Jan '08

25 Jan '08

2008/01/25 01:00:06 An error occured while starting update of from !! Error message below: DBI connect('bogas_bogas:psbsql01:3306','bogas',...) failed: Can't connect to MySQL server on 'psbsql01' (111) at /www/group/biocomp/extra/bioinformatics_prod/webtools/annot/src/perl/modules/BOGAS/DB.pm line 470

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[Beg-bogas] update error
by liste＠hagrid.fvms.ugent.be 25 Jan '08

25 Jan '08

2008/01/25 01:00:06 An error occured while starting update of from !! Error message below: DBI connect('bogas_bogas:psbsql01:3306','bogas',...) failed: Can't connect to MySQL server on 'psbsql01' (111) at /www/group/biocomp/extra/bioinformatics_prod/webtools/annot/src/perl/modules/BOGAS/DB.pm line 470

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[Beg-bogas] update error
by liste＠hagrid.fvms.ugent.be 25 Jan '08

25 Jan '08

2008/01/25 01:00:06 An error occured while starting update of from !! Error message below: DBI connect('bogas_bogas:psbsql01:3306','bogas',...) failed: Can't connect to MySQL server on 'psbsql01' (111) at /www/group/biocomp/extra/bioinformatics_prod/webtools/annot/src/perl/modules/BOGAS/DB.pm line 470

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[Beg-bogas] update error
by liste＠hagrid.fvms.ugent.be 25 Jan '08

25 Jan '08

2008/01/25 01:00:06 An error occured while starting update of from !! Error message below: DBI connect('bogas_bogas:psbsql01:3306','bogas',...) failed: Can't connect to MySQL server on 'psbsql01' (111) at /www/group/biocomp/extra/bioinformatics_prod/webtools/annot/src/perl/modules/BOGAS/DB.pm line 470

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[Beg-bogas] RE: Web site problem[Virus Scanned by MBA]
by Lieven Sterck 21 Jan '08

21 Jan '08

Hi Garry, We'll look into it. thanks and grtz, lieven > Hi Lieven, > > > > Ive already tried logging in and out again it makes no difference , > however I also noticed that when I am logged in initially I cant see my 5 > most recent modifications. I can still perform searches and modify them > and I can work with anything on the first page of my workbench, but there > is defiantly something wrong. > > > > Thanks again > > > > ________________________________ > > From: lieven sterck [mailto:lieven.sterck@psb.ugent.be] > Sent: 21 January 2008 16:58 > To: Garry Farnham > Subject: Re: Web site problem[Virus Scanned by MBA] > > > > Hi Garry, > > could you make sure you are logged in properly. > It seems that he gives you an 'you are not logged in' error. > > thanks, > lieven > > > Garry Farnham wrote: > > The problem is with my workbench when I open up the workbench I see 20 > entries and there are 3 more pages like this . However I can not access > pages two or three of my workbench . > > When I click on workbench page two there is a message which quickly > flashes saying " you don't have access to workbench \ index\ page:2" or > something similar to that. > > Hope this helps > > Thanks garry > > > > -----Original Message----- > From: lieven sterck [mailto:lieven.sterck@psb.ugent.be] > Sent: 21 January 2008 16:46 > To: Garry Farnham > Subject: Re: Web site problem[Virus Scanned by MBA] > > Hi Garry, > > sorry, not that I'm aware of. > Could you give me more information? > > thanks, > lieven > > > Garry Farnham wrote: > > > Hi Lieven, > > The bogas site appears to be not responding properly , is there a problem > at the moment. > > Thanks Garry > > -----Original Message----- > From: lieven sterck [mailto:lieven.sterck@psb.ugent.be] > Sent: 18 January 2008 14:59 > To: ectocarpus(a)sb-roscoff.fr > Subject: TF-annotation microjamboree[Virus Scanned by MBA] > > Dear all, > > We plan to have an (informal) meeting somewhere in February here in Gent > to discuss the different approaches to annotate the TFs in ectocarpus > (and divide the workload). > Although this meeting is primarily for people involved in annotation of > TFs, it's open to everybody who is interested. > Below is a link provided to a doodle-poll to find a date for the > meeting. If you are willing to join, you just have to participate in > this poll by selecting the dates that are suitable for you. > > http://www.doodle.ch/xwni5tqk22fbfa7w > > Best regards, > lieven (and the BOGAS-team) > > > > > > > > > > > > -- > ============================================================== > Lieven Sterck Predoctoral fellow > > Tel:+32 (0)9 3313821 Fax:+32 (0)9 3313809 > VIB Department of Plant Systems Biology, UGent > Bioinformatics and Evolutionary Genomics Division > Technologiepark 927, B-9052 Gent, Belgium > Email: lieven.sterck(a)psb.ugent.be > Website: http://bioinformatics.psb.ugent.be > > -------------------------------------------------------------- > Algal Genetics Group > UMR 7139 CNRS-UPMC > Végétaux Marins et Biomolécules (Marine Plants and Biomolecules) > Station Biologique > Place Georges Teissier, BP74 > 29682 Roscoff Cedex, France > Website: http://www.sb-roscoff.fr/UMR7139/en/genetics.html > ============================================================== >

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[Beg-bogas] Re: BOGAS
by Bank Beszteri 21 Jan '08

21 Jan '08

Dear BOGAS Team, thanks! I have done so, and could succesfully log on afterwards and see the Ectocarpus start page; but when trying the Download link, I´m being asked for my username & passwd and I cannot log on with the user name / passwd I just took. Should this link work for me now? Cheers, Bank beg-bogas(a)psb.ugent.be wrote: > Hi, > > you have been invited to take part in the annotation of Ectocarpus. > Please click on following link to activate your user account: > > 89edff9c092f7dae9c1 e88c2ee00d993 > <http://bioinformatics.psb.ugent.be/webtools/bogas/users/invitationcode/89ed…> > > If the link doesn't work, try to go to > http://bioinformatics.psb.ugent.be/webtools/bogas/users/enteric and > enter 89edff9c092f7dae9c1e88c2ee00d993 > > with kind regards, > the BOGAS team -- Dr. Bánk Beszteri Bioinformatics / Scientific Computing Alfred Wegener Institute for Polar and Marine Research Am Handelshafen 12. 27570 Bremerhaven Germany Tel.: (0049)-(0)471-4831-1656 E-mail: bbeszteri(a)awi-bremerhaven.de WWW: http://www.awi.de/en/go/bioinformatics/

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[Beg-bogas] Re: access problem BOGAS
by Lieven Sterck 18 Jan '08

18 Jan '08

Dear Carl, I see it too now, we'll look into it. thanks for the information, best regards, lieven > Dear Lieven, here is the message I get: > > Forbidden > > You don't have permission to access > /webtools/bogas/annotation/edit/Ectsi/666666/Esi0058_0142/latest on this > server. > > ---------- > Apache/2.2.0 (Fedora) Server at bioinformatics.psb.ugent.be Port 80 > > > I am in the annotation edit mode annotating a gene on Locus ID: > Esi0058_0142 > Contig: sctg_58 > Species: Ectocarpus siliculosus > Functional Description: n/a > Current Date: 18 January 2008 at 00 hours 39 minutes > > Not sure what the problem is since I did exactly the same thing 4 hours > ago > w/o problem. > Regards > CJC > > > > > > At 11:59 PM 01/17/2008 +0100, you wrote: >>Dear Carl, >> >>I don't experience any more problems here at home. >>could you be more specific in what you are modifing? >> >>thanks, >>lieven >> >> > I started out OK today but now the system indicates I am forbidden >> from >> > making annotations. I logged and back in again and everything else >> seems >> > to >> > work but it will no longer allow to modify records. What's up? Is this >> > part >> > of the previous problems? >> > Regards >> > CJC >> > >> > >> > >> > >> > >> > At 07:04 PM 01/16/2008 +0100, you wrote: >> >>Dear all, >> >> >> >>apparently there are still some problems. >> >>We are currently looking into them. >> >> >> >>sorry for the inconvenience and thanks for the patience. >> >>best regards, >> >>lieven >> >> >> >>lieven sterck wrote: >> >>>Dear all, >> >>> >> >>>there has been a problem accessing BOGAS today (16/01/08 from ~10h >> till >> >>> 17h). >> >>>It is solved now. >> >>> >> >>>Sorry for the inconvenience. >> >>>Best regards, >> >>>lieven >> >> >> >>-- >> >>============================================================== >> >>Lieven Sterck Predoctoral fellow >> >> >> >>Tel:+32 (0)9 3313821 Fax:+32 (0)9 3313809 >> >>VIB Department of Plant Systems Biology, UGent >> >>Bioinformatics and Evolutionary Genomics Division >> >>Technologiepark 927, B-9052 Gent, Belgium >> >>Email: lieven.sterck(a)psb.ugent.be >> >>Website: http://bioinformatics.psb.ugent.be >> >> >> >>-------------------------------------------------------------- >> >>Algal Genetics Group >> >>UMR 7139 CNRS-UPMC >> >>Végétaux Marins et Biomolécules (Marine Plants and Biomolecules) >> >>Station Biologique Place Georges Teissier, BP74 >> >>29682 Roscoff Cedex, France >> >>Website: http://www.sb-roscoff.fr/UMR7139/en/genetics.html >> >>============================================================== >> > >> > ________________________________ >> > >> > Carl J. Carrano, Professor and Chair >> > Department of Chemistry >> > San Diego State University >> > San Diego, CA 92182-1030 >> > phone 619-594-5929 >> > fax: 619-594-4634 >> > email: carrano(a)sciences.sdsu.edu >> > ________________________________ >> > > > ________________________________ > > Carl J. Carrano, Professor and Chair > Department of Chemistry > San Diego State University > San Diego, CA 92182-1030 > phone 619-594-5929 > fax: 619-594-4634 > email: carrano(a)sciences.sdsu.edu > ________________________________

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[Beg-bogas] [Fwd: Re: access problem BOGAS]
by Lieven Sterck 18 Jan '08

18 Jan '08

als ge iets invoert bijde edit als %3 dan komde uit op een 'page not found'?? we doen wij toch url encode of nie? L. ---------------------------- Original Message ---------------------------- Subject: Re: access problem BOGAS From: "Carl Carrano" <carrano(a)sciences.sdsu.edu> Date: Thu, January 17, 2008 11:28 pm To: "lieven sterck" <lieven.sterck(a)psb.ugent.be> -------------------------------------------------------------------------- I started out OK today but now the system indicates I am forbidden from making annotations. I logged and back in again and everything else seems to work but it will no longer allow to modify records. What's up? Is this part of the previous problems? Regards CJC At 07:04 PM 01/16/2008 +0100, you wrote: >Dear all, > >apparently there are still some problems. >We are currently looking into them. > >sorry for the inconvenience and thanks for the patience. >best regards, >lieven > >lieven sterck wrote: >>Dear all, >> >>there has been a problem accessing BOGAS today (16/01/08 from ~10h till 17h). >>It is solved now. >> >>Sorry for the inconvenience. >>Best regards, >>lieven > >-- >============================================================== >Lieven Sterck Predoctoral fellow > >Tel:+32 (0)9 3313821 Fax:+32 (0)9 3313809 >VIB Department of Plant Systems Biology, UGent >Bioinformatics and Evolutionary Genomics Division >Technologiepark 927, B-9052 Gent, Belgium >Email: lieven.sterck(a)psb.ugent.be >Website: http://bioinformatics.psb.ugent.be > >-------------------------------------------------------------- >Algal Genetics Group >UMR 7139 CNRS-UPMC >Végétaux Marins et Biomolécules (Marine Plants and Biomolecules) >Station Biologique Place Georges Teissier, BP74 >29682 Roscoff Cedex, France >Website: http://www.sb-roscoff.fr/UMR7139/en/genetics.html >============================================================== ________________________________ Carl J. Carrano, Professor and Chair Department of Chemistry San Diego State University San Diego, CA 92182-1030 phone 619-594-5929 fax: 619-594-4634 email: carrano(a)sciences.sdsu.edu ________________________________

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[Beg-bogas] update error Esi0000_0012
by liste＠hagrid.fvms.ugent.be 17 Jan '08

17 Jan '08

2008/01/17 16:02:57 An error occured while updating Esi0000_0012 from Trpee!! Error message below: DBI connect('::','',...) failed: Can't connect to local MySQL server through socket '/tmp/mysql.sock' (2) at /www/group/biocomp/extra/bioinformatics_prod/webtools/annot/src/perl/modules/BOGAS/DB.pm line 470

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