- binari@psb.ugent.be - maillist.psb.ugent.be

[Binari] Rules of the lab (pun intented on research@)
by Kenny Billiau 29 Oct '08

29 Oct '08

1. When you don't know what you're doing, do it neatly and sterile. 2. Experiments must be reproduceable, they should fail the same way each time. 3. First draw your curves, then plot your data. 4. If your data are skewed due to inaccuracy, there must be a problem with the equipment. 5. A record of data is essential, it shows you were working. 6. Prefer your colleages equipment above yours, that way you don't break or contaminate your own labstuff. 7. To do an experiment really well, write down your results in advance. 8. If you can't get the answer in the usual manner, start at the answer and derive the question. 9. If that doesn't work, start at both ends and try to find a common middle. 10. If you don't like doing a particular experiment, put your undergraduate student on that! 11. Do not believe in miracles---rely on them. 12. Team work is essential. It allows you to blame someone else. 13. Always put your name on everything, especially when it is not yours. 14. Any delicate and expensive piece of glassware will break before any use can be made of it. (Law of Spontaneous Fission) 15. If you don't succeed, destroy all evidence that you have tried. 16. Never replicate a successful experiment, just copy-paste the previous data. 17. An undergraduate student is the perfect excuse for all failures! 18. Never fall asleep in the lab, unless you are looking through a microscope (no one will notice). 19. Never cough or sneeze on your own sterile lab bench, but use your colleage's bench for that. 20. A couple of months in the laboratory can often save a couple of hours in the library. bron: http://aardbeiwormpje.spaces.live.com/ (aardbeiworpje bij god!) -- ================================================================== Kenny Billiau Web Developer Tel:+32 (0)9 331 36 95 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM kenny.billiau(a)psb.ugent.be http://bioinformatics.psb.ugent.be ==================================================================

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[Binari] biomart download
by Tine Blomme 29 Oct '08

29 Oct '08

Hi, I'm trying to download large fasta files from Ensembl using the biomart tool, but I never succeed in obtaining the entire file. It looks like the query is stopped after a period of time with the message that the download it is complete. However, it is not complete at all! Has this something to do with time out settings? Any suggestions to solve this? Tine

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[Binari] clustering
by Esther-Kristin Lather 27 Oct '08

27 Oct '08

Hi! I have to cluster the whole Arabidopsis proteome (~30.000 proteins), tested under 940 and 85 different conditions. I tried to do the 85*30000 set with Genesis (to find among the Network Programs) and after 20 minutes or so it runs out of memory. Has anyone a script with which I can do the clustering (well, I only know Perl and a bit of R)? Who from our group works on this? Thanks! Esther.

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[Binari] We've got a new winner
by Kenny Billiau 27 Oct '08

27 Oct '08

https://bioinformatics.psb.ugent.be/knowledge/wiki-bioinformatics/Hall_of_s… -- ================================================================== Kenny Billiau Web Developer Tel:+32 (0)9 331 36 95 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM kenny.billiau(a)psb.ugent.be http://bioinformatics.psb.ugent.be ==================================================================

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Re: [Binari] no discussion about fries today?
by Esther-Kristin Lather 24 Oct '08

24 Oct '08

To summarize: solan: small one (& mayonaise) WITH a cheeseburger kebil: small met stoofvleessaus en een sate thpar: small one with mayonnaise sepro: large one with stoofvlees saus and 'n viandel

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[Binari] no discussion about fries today?
by Esther-Kristin Lather 24 Oct '08

24 Oct '08

I don't want any (except your leftovers which will not be much because by now all of you know which size is the best for you ), but I would volunteer for fetching them. Any orders or someone joining me? Esther.

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[Binari] Re: Ports (fwd)
by Kenny Billiau 24 Oct '08

24 Oct '08

-- ---------- Forwarded message ---------- Date: Fri, 24 Oct 2008 10:45:12 +0200 (CEST) From: Kenny Billiau <kebil(a)psb.ugent.be> To: HelpDesk <help(a)psb.ugent.be> Cc: Thomas Van Parys <thpar(a)psb.ugent.be>, Luc Van Wiemeersch <luwie(a)psb.ugent.be> Subject: Re: Ports Hoi, Thomas heeft het vandaag niet meer nodig, is het mogelijk het naar mijn IP te veranderen ? -Kenny On Fri, 24 Oct 2008, HelpDesk wrote: > Thomas, > > Om security redenen heb ik IRC opengezet naar freenode.net (140.211.166.123) > enkel voor 192.168.64.16 (Het Ip adres van jou PC) > > mvg, > Dany > > Thomas Van Parys wrote: > > HelpDesk schreef: > > > > > IRC naar freenode zullen we openzetten. > > > > > > Luc > > > > Hallo, > > > > Zou het toch mogelijk zijn om IRC-verkeer terug open te zetten (en > > inderdaad desnoods enkel naar freenode-servers)? > > > > http://freenode.net/irc_servers.shtml > > > > Ik veronderstel dat het voldoet om toegang te verlenen op poort 6667 naar > > servers *.freenode.net > > > > > > alvast bedankt, > > mvg, > > Thomas > > > > > > > > > > Hoi, > > > > > > > > na wat overleg met de andere techniekers (thpar, mibel) zou het mssn > > > > handig zijn om volgende poorten open te zetten. Mssn enkel vooor de > > > > mensen in beg? > > > > > > > > IMAP over SSL: 993 > > > > IMAP zonder SSL: 143 > > > > POP3 > > > > Er kunnen geen externe mailboxen meer worden geopend (gmail in > > > > thunderbird lijkt niet meer te werken). > > > > Hotmail in outlook of mail (mac) is ook onbereikbaar. (Geen idee van > > > > het protocol of poort. Ik dacht simpelweg over http, maar lijkt niet > > > > te lukken.) > > > > > > > > IRC: 6667 > > > > Enkel voor irc.freenode.org. Freenode heeft enkel techsupport kanalen > > > > voor bv Java, Perl, php, linux, eclipse, vim, cakephp, .. > > > > > > > > Google Talk: 5223 > > > > MSN: 1863 > > > > ICQ: 5190 > > > > IM's, occasioneel gebruikt om collega's te contacteren die thuis > > > > werken. > > > > > > > > NNTP: 119 > > > > Usenet, momenteel niet vaak gebruikt, maar in het verleden zijn de > > > > eclipse-nieuwsgroepen al van groot nut geweest. > > > > > > > > Uiteraard zijn er voor al deze toepassingen afzonderlijke web clients > > > > beschikbaar, maar dat betekent heel wat (tragere en onhandige) > > > > browser vensters die moeten open staan, terwijl die anders in twee > > > > kleine clients (Thunderbird, Kopete of centerim) op de achtergrond > > > > draaien. > > > > > > > > > > > > --

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[Binari] [Fwd: ROOOAAAR]
by Tine Blomme 24 Oct '08

24 Oct '08

could we reply: please send this message to "products"? -- ================================================================== Tine Blomme Tel:+32 (0)9 331 38 22 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM tiblo(a)psb.ugent.be http://www.psb.ugent.be ==================================================================

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[Binari] Re: Ports (fwd)
by Kenny Billiau 24 Oct '08

24 Oct '08

djee, thx IT. Does anyone has any (trusthworthy) server which can give us MSN, ICQ and IRC? Through ssh or X forwarding? -Kenny -- ---------- Forwarded message ---------- Date: Fri, 24 Oct 2008 09:44:12 +0200 From: HelpDesk <help(a)psb.ugent.be> To: Thomas Van Parys <thpar(a)psb.ugent.be> Cc: Kenny Billiau <kebil(a)psb.ugent.be>, Luc Van Wiemeersch <luwie(a)psb.ugent.be> Subject: Re: Ports Thomas, Om security redenen heb ik IRC opengezet naar freenode.net (140.211.166.123) enkel voor 192.168.64.16 (Het Ip adres van jou PC) mvg, Dany Thomas Van Parys wrote: > HelpDesk schreef: > > > IRC naar freenode zullen we openzetten. > > > > Luc > > Hallo, > > Zou het toch mogelijk zijn om IRC-verkeer terug open te zetten (en inderdaad > desnoods enkel naar freenode-servers)? > > http://freenode.net/irc_servers.shtml > > Ik veronderstel dat het voldoet om toegang te verlenen op poort 6667 naar > servers *.freenode.net > > > alvast bedankt, > mvg, > Thomas > > > > > > Hoi, > > > > > > na wat overleg met de andere techniekers (thpar, mibel) zou het mssn > > > handig zijn om volgende poorten open te zetten. Mssn enkel vooor de > > > mensen in beg? > > > > > > IMAP over SSL: 993 > > > IMAP zonder SSL: 143 > > > POP3 > > > Er kunnen geen externe mailboxen meer worden geopend (gmail in > > > thunderbird lijkt niet meer te werken). > > > Hotmail in outlook of mail (mac) is ook onbereikbaar. (Geen idee van het > > > protocol of poort. Ik dacht simpelweg over http, maar lijkt niet te > > > lukken.) > > > > > > IRC: 6667 > > > Enkel voor irc.freenode.org. Freenode heeft enkel techsupport kanalen > > > voor bv Java, Perl, php, linux, eclipse, vim, cakephp, .. > > > > > > Google Talk: 5223 > > > MSN: 1863 > > > ICQ: 5190 > > > IM's, occasioneel gebruikt om collega's te contacteren die thuis werken. > > > > > > NNTP: 119 > > > Usenet, momenteel niet vaak gebruikt, maar in het verleden zijn de > > > eclipse-nieuwsgroepen al van groot nut geweest. > > > > > > Uiteraard zijn er voor al deze toepassingen afzonderlijke web clients > > > beschikbaar, maar dat betekent heel wat (tragere en onhandige) browser > > > vensters die moeten open staan, terwijl die anders in twee kleine > > > clients (Thunderbird, Kopete of centerim) op de achtergrond draaien. > > > > > >

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[Binari] HD crash recovery
by Kenny Billiau 23 Oct '08

23 Oct '08

Hi, Ricardo only arrived here and apparentlym, his parents crashed his computer in Portugal. The disk was 80GB and is now shows up as 31GB disk. It's a FAT formatted disk. With some unknown recovery tool he tried to get his files back. It works for most, but sometimes he simply get rubbish back. That's all he told me. Any ideas on how to get the data back? -Kenny -- ================================================================== Kenny Billiau Web Developer Tel:+32 (0)9 331 36 95 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM kenny.billiau(a)psb.ugent.be http://bioinformatics.psb.ugent.be ==================================================================

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