September 2008 - binari@psb.ugent.be

[Binari] The ultimate gaming pc ..
by Kenny Billiau 20 Sep '08

20 Sep '08

.. of 98! * $5,000 CRT widescreen monitor * Pentium II, 300MHz processor * 128 MB of SDRAM * Wave Table/3D sound (rocking CANYON.MID) * Addtronics tower case with eight drive bays and five cooling fans * Asus LX motherboard with ultra-wide Adaptec SCSI adapters * Seagate Cheetah 9.1 GB and 4.1 GB hard drives (10,000 RPM!) * Plextor 32x CD-ROM http://www.youtube.com/watch?v=huyzCJvS6UQ And to compensate .. one of today : Alienware Area 51 ALX * 1200 Watt power supply * NVIDIA nForce 790i Ultra SLI Motherboard - includes PCI-Express 2.0, DDR3 Memory, and Support for Intel 1600MHz FSB * Intel Core 2 Extreme QX9770 3.2GHz 12MB Cache 1600MHz FSB * 4GB Corsair Dominator Overclocked Dual Channel DDR3 SDRAM at 1600MHz * Triple 1GB NVIDIA GeForce GTX 280 * 1TB (2 x 500GB) SATA 3Gb/s 7,200RPM 2 x 16MB Cache * 500GB SATA 3Gb/s 7,200RPM 16MB Cache (storage drive) * 4x Dual Layer Blu-ray Burner (BD-RE, DVD±RW, CD-RW) * Dual High Performance Gigabit Ethernet Ports * High-Definition 7.1 Performance Audio * Logitech G15 Keyboard * Razer Lachesis 4000dpi Laser Gaming Mouse * Liquid cooling system http://blogs.techrepublic.com.com/geekend/?p=1485 omg, we came a long way :) (and in 1988 is was the Apple ][c who was stelaing the show http://images.google.com/images?q=apple%20iic ) -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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[Binari] paper droids
by Kenny Billiau 19 Sep '08

19 Sep '08

Hi, after the huge success of the paper TUX, I've found another paper chalenge: http://www7a.biglobe.ne.jp/~sf-papercraft/index.html A Millennium Falcom is already begin made, but I'm simply going for the Borg cube ;) Anybody else who wants to make something? -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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[Binari] slipknot
by Kenny Billiau 17 Sep '08

17 Sep '08

The new slipknot album is on there too :) http://mp3db.ru/post.php?pid=2621 (or here: http://psbpc057/Music/Slipknot/ But it's still downloading) -- ================================================================== 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] Joepie!
by Thomas Van Parys 17 Sep '08

17 Sep '08

http://fr.youtube.com/watch?v=atP_VnQL3Gc -- ================================================================== Thomas Van Parys 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 thomas.vanparys(a)psb.ugent.be http://bioinformatics.psb.ugent.be ==================================================================

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[Binari] looking for ....
by lieven sterck 16 Sep '08

16 Sep '08

a perl regex to check whether a sequence is pure DNA or not. bonus question: what if I also need to allow IUPAC code for DNA. thx, L. -- ============================================================== Lieven Sterck, PhD 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 ============================================================== "Facts are meaningless. You could use facts to prove anything that's even remotely true!" H. Simpson

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[Binari] for the Metallica fans
by Kenny Billiau 16 Sep '08

16 Sep '08

Their latest album :) http://mp3db.ru/post.php?pid=2643 -- ================================================================== 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] some more SQL
by Michiel Van Bel 15 Sep '08

15 Sep '08

Hey, i have to do 4 very similar queries (5 restrictions, and only the last one - coordinate- varies) . To give you some idea, ive written them down below. SELECT `ad_genes`.`gene_id` FROM `ad_genes`,`annotation` WHERE `ad_genes`.`exp_id`='2' AND `annotation`.`gene_id` = `ad_genes`.`gene_id` AND `annotation`.`species` = 'ath' AND `ad_genes`.`chr` ='1' AND `ad_genes`.`coordinate` = '9'; SELECT `ad_genes`.`gene_id` FROM `ad_genes`,`annotation` WHERE `ad_genes`.`exp_id`='2' AND `annotation`.`gene_id` = `ad_genes`.`gene_id` AND `annotation`.`species` = 'ath' AND `ad_genes`.`chr` ='1' AND `ad_genes`.`coordinate` = '109'; SELECT `ad_genes`.`gene_id` FROM `ad_genes`,`annotation` WHERE `ad_genes`.`exp_id`='2' AND `annotation`.`gene_id` = `ad_genes`.`gene_id` AND `annotation`.`species` = 'ath' AND `ad_genes`.`chr` ='1' AND `ad_genes`.`coordinate` = '309'; SELECT `ad_genes`.`gene_id` FROM `ad_genes`,`annotation` WHERE `ad_genes`.`exp_id`='2' AND `annotation`.`gene_id` = `ad_genes`.`gene_id` AND `annotation`.`species` = 'ath' AND `ad_genes`.`chr` ='1' AND `ad_genes`.`coordinate` ='409'; The thing is, when i execute them this way, each one takes about 500ms, so that makes 2 seconds in total (which is kinda crap). I could just create 1 query by concatenating the 4 coordinates and use coordinate IN (9,109,309,409). This also executes in about 500ms (which is quite an improvement). However, it is possible that there are no results (for 1 or more of these coordinates), and thus i do not always get the correct amount of data back. To make matters worse, sometimes these coordinates can be te same, and then i also have less then 4 results (i can filter those out with php however). So, is there any way to make these 4 queries (within about 500ms) and in such a way that i get always 4 results (which might be empty, but then i know at least that) ? Michiel PS: the 4 coordinates vary of course, this is just an example. -- ================================================================== Michiel Van Bel PhD student 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 mibel(a)psb.ugent.be http://www.psb.ugent.be ==================================================================

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[Binari] [Fwd: [Begfun] Live video feed from the Large Hadron Collider]
by Thomas Abeel 12 Sep '08

12 Sep '08

For those not on begfun -------- Original Message -------- Subject: [Begfun] Live video feed from the Large Hadron Collider Date: Fri, 12 Sep 2008 10:57:57 +0200 From: Jonathan Gordon <jogor(a)psb.ugent.be> Reply-To: begfun(a)psb.ugent.be To: begfun(a)psb.ugent.be http://www.cyriak.co.uk/lhc/lhc-webcams.html -- ================================================================== Jonathan Gordon Tel:+32 (0)9 331 37 58 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM jogor(a)psb.ugent.be http://www.psb.ugent.be ================================================================== _______________________________________________ Because YouTube is so much more fun Begfun(a)psb.ugent.be https://maillist.psb.ugent.be/mailman/listinfo/begfun

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[Binari] DOS scripting
by lieven sterck 12 Sep '08

12 Sep '08

anybody up for some scripting in MS-DOS ? L. -- ============================================================== Lieven Sterck, PhD 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 ============================================================== "Facts are meaningless. You could use facts to prove anything that's even remotely true!" H. Simpson

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[Binari] Re: wishlist (fwd)
by Kenny Billiau 12 Sep '08

12 Sep '08

.. So who wants to join for the meeting? :) -- ---------- Forwarded message ---------- Date: Fri, 12 Sep 2008 11:35:11 +0200 From: HelpDesk <help(a)psb.ugent.be> To: Kenny Billiau <kebil(a)psb.ugent.be> Cc: Luc Van Wiemeersch <luwie(a)psb.ugent.be> Subject: Re: wishlist Kenny, Ik denk dat we best eens een meeting beleggen als Luc terug is. Toch al enkele bemerkingen: - http access naar psbdev01 is mogelijk via de portal. Wil je werkelijk toegang vanaf het internet naar psbdev01 dan moeten we eventueel overwegen om psbdev01 in de dmz te plaatsen. - jar files worden nu eenmaal geblocked door TrendMicro IMSS (InterScan Messaging Security Suite) dewelke geinstalleerd is op onze mailrelay. Kwestie van security dus. Probeer jar files eventueel te zippen of 7-zippen en een paswoord op de zip file te plaatsen. Op die manier heeft IMSS geen toegang tot de zip. - Gezien private laptops niet onder controle zijn van onze helpdesk zijn we genoodzaakt om restricties op te leggen. In feite zijn deze restricties zelfs vrij beperkt want het biedt mogelijkheden aan private laptops om drives te mappen, mail te openen, etc.. Bij vele firma's is het zelfs taboe om met private laptops te connecteren op het netwerk, tenzij misschien in een aparte vlan waar je internet access hebt en zo een vpn op te zetten. - De portal heeft een optie die noemt "network connect". Dit is een eigenlijk een ssl tunnel ipv de klassieke ipsec tunnel. Op de portal zelfs worden dan een aantal regels geconfigureerd die bepalen wat door deze tunnel mag en wat niet. Dit zou eventueel mogelijkheden bieden voor svn en misschien ook wel voor NFS mounts. Dit moet echter uitgetest worden, want eerlijk gezegd heb ik geen zicht hoe svn werkt. De "network connect" optie wordt momenteel gebruikt door de mensen van switchlab (Brussel) om te connecteren naar hun cluster (Artemis) en zijn daar heel tevreden mee. Dit vraagt echter een bijkomende stap om eerst in te loggen op de portal en dan "network connect" op te starten. mvg, Dany Kenny Billiau wrote: > Hi, > > as requested, we compiled a wishlist :) > > - mapping of drives at home. For windows machines and for linux machines. > It would be nice to have NFS mounts instead of having to fiddle with > SMB/CIFS and messing up our permissions. > - authenticated svn that is accessible outside the building without > tricks. Now we have to svn -L through midas to get to the svns at > psbdev. > - we would like to able to mail jar files, both incoming and outgoing. > - (http)access to psbdev01 from outside. So we would have a way of testing > websites, java webstart, access to the hosted bugTrackers. > - No extra restrictions on private laptops? (working scp, ssh-ing to > psb{dev|sql} servers from within the building without going through > midas) > > -Kenny >

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