From thomas.f.hahn2 at gmail.com Sun Jan 4 04:27:57 2015 From: thomas.f.hahn2 at gmail.com (thomas hahn) Date: Sat, 3 Jan 2015 21:27:57 -0600 Subject: [EuroPython] Help with finding tutors for Python, Linux, R, Perl, Octave, MATLAB and/or Cytoscape for yeast microarray analysis, next generation sequencing and constructing gene interaction networks Message-ID: *Help with finding tutors for Python, Linux, R, Perl, Octave, MATLAB and/or Cytoscape for yeast microarray analysis, next generation sequencing and constructing gene interaction networks* Hi I am a visually impaired bioinformatics graduate student using microarray data for my master?s thesis aimed at deciphering the mechanism by which the yeast wild type can suppress the rise of free reactive oxygen species (ROS) induced by caloric restriction (CR) but the Atg15 and Erg6 knockout mutant cannot. Since my remaining vision is very limited I need very high magnification. But that makes my visual field very small. Therefore I need somebody to teach me how to use these programming environments, especially for microarray analysis, next generation sequencing and constructing gene and pathway interaction networks. This is very difficult for me to figure out without assistance because Zoomtext, my magnification and text to speech software, on which I am depending because I am almost blind, has problems reading out aloud many programming related websites to me. And even those websites it can read, it can only read sequentially from left to right and then from top to bottom. Unfortunately, this way of acquiring, finding, selecting and processing new information and answering questions is too tiresome, exhausting, ineffective and especially way too time consuming for graduating with a PhD in bioinformatics before my funding runs out despite being severely limited by my visual disability. I would also need help with writing a good literature review and applying the described techniques to my own yeast Affimetrix microarray dataset because I cannot see well enough to find all relevant publications on my own. Some examples for specific tasks I urgently need help with are: 1. Analyzing and comparing the three publically available microarray datasets that can be accessed at: A. http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE41860 B. http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE38635 C. http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE9217 2. Learning how to use the Affymetrics microarray analysis software for the Yeast 2 chip, which can be found at http://www.affymetrix.com/support/technical/libraryfilesmain.affx 3. For Cytoscape I need somebody, who can teach me how to execute the tutorials at the following links because due to my very limited vision field I cannot see tutorial and program interface simultaneously. A. http://opentutorials.cgl.ucsf.edu/index.php/Tutorial:Introduction_to_Cytoscape_3.1-part2#Importing_and_Exploring_Your_Data B. http://opentutorials.cgl.ucsf.edu/index.php/Tutorial:Filtering_and_Editing_in_Cytoscape_3 C. http://cytoscape.org/manual/Cytoscape2_8Manual.html#Import%20Fixed-Format%20Network%20Files D. http://wiki.cytoscape.org/Cytoscape_User_Manual/Network_Formats 4. Learning how to use the TopGo R package to perform statistical analysis on GO enrichments. Since I am legally blind the rehab agency is giving me money to pay tutors for this purpose. Could you please help me getting in touch regarding this with anybody, who could potentially be interested in teaching me one on one thus saving me time for acquiring new information and skills, which I need to finish my thesis on time, so that I can remain eligible for funding to continue in my bioinformatics PhD program despite being almost blind? The tutoring can be done remotely via TeamViewer 5 and Skype. Hence, it does not matter where my tutors are physically located. Currently I have tutors in Croatia and UK. But since they both work full time jobs while working on their PhD dissertation they only have very limited time to teach me online. Could you therefore please forward this request for help to anybody, who could potentially be interested or, who could connect me to somebody, who might be, because my graduation and career depend on it? Who else would you recommend me to contact regarding this? Where else could I post this because I am in urgent need for help? Could you please contact me directly via email at Thomas.F.Hahn2 at gmail.com and/or Skype at tfh002 because my text to speech software has problems to read out this website aloud to me? I thank you very much in advance for your thoughts, ideas, suggestions, recommendations, time, help, efforts and support. With very warm regards, *Thomas Hahn* 1) *Graduate student in the Joint Bioinformatics Program at the University of Arkansas at Little Rock (UALR) and the University of Arkansas Medical Sciences (UAMS) &* 2) *Research & Industry Advocate, Founder and Board Member of RADISH MEDICAL SOLUTIONS, INC. (**http://www.radishmedical.com/thomas-hahn/* *) * *Primary email: **Thomas.F.Hahn2 at gmail.com* *Cell phone: 318 243 3940* *Office phone: 501 682 1440* *Office location: EIT 535* *Skype ID: tfh002* *Virtual Google Voice phone to reach me while logged into my email (i.e. * *Thomas.F.Hahn2 at gmail.com* *), even when having no cell phone reception, e.g. in big massive buildings: *(501) 301-4890 <%28501%29%20301-4890> *Web links: * 1) https://ualr.academia.edu/ThomasHahn 2) https://www.linkedin.com/pub/thomas-hahn/42/b29/42 3) http://facebook.com/Thomas.F.Hahn 4) https://twitter.com/Thomas_F_Hahn -------------- next part -------------- An HTML attachment was scrubbed... URL: From mal at europython.eu Thu Jan 15 14:09:05 2015 From: mal at europython.eu (M.-A. Lemburg) Date: Thu, 15 Jan 2015 14:09:05 +0100 Subject: [EuroPython] EuroPython 2015: Come join us from July 20-26 in Bilbao ! Message-ID: <54B7BBF1.6060505@europython.eu> We are happy to announce the dates for EuroPython 2015 in Bilbao, Spain, this year: Monday, July 20 - Sunday, July 26 Please mark your calendar. We?d love to meet you all in Bilbao - and hey, it?s summer, so you might want to combine the conference with a holiday :-) For updates, please watch our blog at http://blog.europython.eu/. Enjoy, ? EuroPython Society (EPS) - http://www.europython-society.org/ Asociaci?n de Ciencias de la Computaci?n Python San Sebasti?n (ACPySS) - http://www.pyss.org/ PS: Please help spread the word and forward this email to all your local lists, user groups, etc. Many thanks ! From mal at europython.eu Fri Jan 16 11:56:38 2015 From: mal at europython.eu (M.-A. Lemburg) Date: Fri, 16 Jan 2015 11:56:38 +0100 Subject: [EuroPython] EuroPython 2015: Your chance to sign up as a launch sponsor Message-ID: <54B8EE66.2030902@europython.eu> Companies who would like to sign up as a EuroPython 2015 launch sponsor are encouraged to contact the sponsor work group at: sponsoring at europython.eu Launch sponsors will get the additional benefit of being listed on the website when we launch - for free. You just need to be quick, since the launch is planned for early in February. More Booths and more Sponsor Slots ---------------------------------- The Euskalduna Conference Center and Concert Hall (ECC) venue in Bilbao was chosen as conference venue for EuroPython 2015: http://www.euskalduna.net/Index.asp?idioma=en It offers plenty of room for sponsor booths, so we will try to make EuroPython 2015 as effective as possible for you as sponsors by offering more booth space and sponsor slots than ever before: http://www.euskalduna.net/espacios/espacios_hall_exposiciones.asp This is your chance to reach out to more than a thousand enthusiastic and highly motivated EuroPython attendees ! Please email us at sponsoring at europython.eu and we?ll send you the sponsor brochure. Thanks, ? EuroPython Society (EPS) http://www.europython-society.org/ PS: Please help spread the word and forward this email to companies you know, your local lists, user groups, etc. Many thanks ! From mal at europython.eu Sat Jan 17 12:21:49 2015 From: mal at europython.eu (M.-A. Lemburg) Date: Sat, 17 Jan 2015 12:21:49 +0100 Subject: [EuroPython] EuroPython 2015: Landing in Bilbao Message-ID: <54BA45CD.1060703@europython.eu> After a creative and inspiring Friday afternoon, we are pleased to announce our EuroPython 2015 landing page: http://ep2015.europython.eu/ This will be the URL for EuroPython 2015 - definitely worth a bookmark, we think :-) Enjoy, -? EuroPython Society (EPS) http://www.europython-society.org/ From joachim at valbonne-consulting.com Fri Jan 23 02:52:40 2015 From: joachim at valbonne-consulting.com (Joachim) Date: Fri, 23 Jan 2015 01:52:40 +0000 (UTC) Subject: [EuroPython] [Off-Topic][Python job opportunity] looking for several full-time Python specialists in Berlin Message-ID: Hi *, Please accept my apologies in advance for being off-topic. We are currently searching (high and low) for passionate Python programmers for Berlin for a leading multinational provider of real-time ad trading platforms. The positions are all _new_ as we want to drive the expansion across Europe. We decided that Berlin was a great choice given the fantastic local tech-scene. Altogether we're looking for around 10-12 engineers to join us over the coming months. Company overview is in a few sentences: - privately owned and very tech-driven (CEO is not some sales or financial guy but well known within the on Computational Theory research community). - develops media trading systems which are used by major companies like Google, Yahoo, Yandex, Facebook & Bing. - system is used to answer complex computational questions around probability, data processing and predict potential user behavior, user- interest and response over which advertisements to deliver. From an engineering perspective this is highly challenging as it operates in a High-Availability/High-Traffic environment and requires Real-Time processing to decide what ads get displayed. A lot of parameters are being taken into consideration to decide what content gets delivered (a problem which is essentially NP-hard). The solution is cloud based (SaaS) and work is structured within agile teams with fast deployment cycles. On the market since many years and headquartered in the UK but with offices all around the world. (multicultural, multinational) Open to accept applications from candidates based outside Germany because we want to attract the strongest candidates and therefore place no limits on geography in the search. Talk is cheap, show me the code (as Linus Torvalds once said), therefore visa sponsorship will be provided for the right candidate. The job: ? Proven track record of previous projects and strong passion for Open Source Technologies and High-Traffic, High-Availability Software platforms. ? Working on complex high load projects deployed across the world; ? Development of business logic in form of Python and Lua programs for in- house Internet advertisement platform; ? Functional testing of implemented business logic using Perl or/and Python test frameworks; ? Support of offline backend data processing programs in Perl and/or Python; ? Coordination with other teams on integration issues; ? Direct discussions on implementation details with company clients; ? Analysis of system behavior in production. Requirements: ? Experience in Lua from 2 years to x years (any seniority, ... if you just graduated that's fine if you can show some projects you maybe did on the side) ; ? Strong focus on algorithm and system performance & experience; ? Ability to work with complicates business logic; ? Passion for Open Source and able to share your know-how across the organization; ? Readiness to study; ? Good knowledge of English Conditions: ? Smart people strive to surround themselves with people smarter than themselves: In this environment you will be working within a leading team of global subject matter experts; ? Professional growth, dealing with the latest technologies; ? Flexible working hours; ? Salary review 1-2 times per year; ? Payable overtime work; For more info please feel free to call me +33 (0) 6 98.97.36.17 or skype (id: valbonneconsulting) or send me your CV to: joachim.bauernberger at valbonne-consulting.com kind regards, Joachim -- https://thequickword.wordpress.com/2014/02/16/james-irys-history-of- programming-languages-illustrated-with-pictures-and-large-fonts/ From daniel.kraft at d9t.de Fri Jan 23 09:00:29 2015 From: daniel.kraft at d9t.de (Daniel Kraft) Date: Fri, 23 Jan 2015 09:00:29 +0100 (CET) Subject: [EuroPython] [Off-Topic][Python job opportunity] looking for several full-time Python specialists in Berlin In-Reply-To: References: Message-ID: <41740803.4368957.1422000029445.JavaMail.zimbra@d9t.de> I'd not call it off-topic, I'd call it spam. ----- Am 23. Jan 2015 um 2:52 schrieb Joachim joachim at valbonne-consulting.com: > Hi *, > > Please accept my apologies in advance for being off-topic. > We are currently searching (high and low) for passionate Python programmers > for Berlin for a leading multinational provider of real-time ad trading > platforms. > > The positions are all _new_ as we want to drive the expansion across > Europe. We decided that Berlin was a great choice given the fantastic local > tech-scene. > Altogether we're looking for around 10-12 engineers to join us over the > coming months. > > Company overview is in a few sentences: > - privately owned and very tech-driven (CEO is not some sales or financial > guy but well known within the on Computational Theory research community). > - develops media trading systems which are used by major companies like > Google, Yahoo, Yandex, Facebook & Bing. > - system is used to answer complex computational questions around > probability, data processing and predict potential user behavior, user- > interest and response over which advertisements to deliver. > > From an engineering perspective this is highly challenging as it operates > in a High-Availability/High-Traffic environment and requires Real-Time > processing to decide what ads get displayed. A lot of parameters are being > taken into consideration to decide what content gets delivered (a problem > which is essentially NP-hard). The solution is cloud based (SaaS) and work > is structured within agile teams with fast deployment cycles. On the market > since many years and headquartered in the UK but with offices all around > the world. (multicultural, multinational) > > Open to accept applications from candidates based outside Germany because > we want to attract the strongest candidates and therefore place no limits > on geography in the search. Talk is cheap, show me the code (as Linus > Torvalds once said), therefore visa sponsorship will be provided for the > right candidate. > > The job: > ? Proven track record of previous projects and strong passion for Open > Source Technologies and High-Traffic, High-Availability Software platforms. > ? Working on complex high load projects deployed across the world; > ? Development of business logic in form of Python and Lua programs for in- > house Internet advertisement platform; > ? Functional testing of implemented business logic using Perl or/and Python > test frameworks; > ? Support of offline backend data processing programs in Perl and/or > Python; > ? Coordination with other teams on integration issues; > ? Direct discussions on implementation details with company clients; > ? Analysis of system behavior in production. > > Requirements: > ? Experience in Lua from 2 years to x years (any seniority, ... if you just > graduated that's fine if you can show some projects you maybe did on the > side) ; > ? Strong focus on algorithm and system performance & experience; > ? Ability to work with complicates business logic; > ? Passion for Open Source and able to share your know-how across the > organization; > ? Readiness to study; > ? Good knowledge of English > > Conditions: > ? Smart people strive to surround themselves with people smarter than > themselves: In this environment you will be working within a leading team > of global subject matter experts; > ? Professional growth, dealing with the latest technologies; > ? Flexible working hours; > ? Salary review 1-2 times per year; > ? Payable overtime work; > > For more info please feel free to call me +33 (0) 6 98.97.36.17 > or skype (id: valbonneconsulting) > or send me your CV to: joachim.bauernberger at valbonne-consulting.com > > kind regards, > Joachim > -- > https://thequickword.wordpress.com/2014/02/16/james-irys-history-of- > programming-languages-illustrated-with-pictures-and-large-fonts/ > _______________________________________________ > EuroPython mailing list > EuroPython at python.org > https://mail.python.org/mailman/listinfo/europython -- *Daniel Kraft* Gesch?ftsf?hrer D9T GmbH - Magirusstr. 39/1 - D-89077 Ulm Tel: +49 731 1411 696-0 - Fax: +49 731 3799-220 Gesch?ftsf?hrer: Daniel Kraft Sitz und Register: Ulm, HRB 722416 Ust.IdNr: DE 260484638 http://d9t.de - Systemhaus f?r Internetl?sungen info at d9t.de From gherman at darwin.in-berlin.de Fri Jan 23 09:24:01 2015 From: gherman at darwin.in-berlin.de (Dinu Gherman) Date: Fri, 23 Jan 2015 09:24:01 +0100 Subject: [EuroPython] [Off-Topic][Python job opportunity] looking for several full-time Python specialists in Berlin In-Reply-To: References: Message-ID: Joachim, "Thank you" for spamming this list (and other ones) and welcome on people's blacklists for unprofessional recruiters! May you get the people that you deserve! Dinu -- Sent on the move. Von unterwegs gesendet. > Am 23.01.2015 um 02:52 schrieb Joachim : > > Please accept my apologies in advance for being off-topic. > We are currently searching (high and low) for passionate Python programmers > for Berlin for a leading multinational provider of real-time ad trading > platforms. From mal at europython.eu Fri Jan 23 09:50:42 2015 From: mal at europython.eu (M.-A. Lemburg) Date: Fri, 23 Jan 2015 09:50:42 +0100 Subject: [EuroPython] [Off-Topic][Python job opportunity] looking for several full-time Python specialists in Berlin In-Reply-To: References: Message-ID: <54C20B62.4010506@europython.eu> Hi Joachim, if you're recruiting, you will likely get better results by sponsoring EuroPython and using th recruiting features of the sponsor packages than posting on this list: http://ep2015.europython.eu/ or contact us directly: sponsoring at europython.eu Thanks, -- Marc-Andre Lemburg Director EuroPython Society http://www.europython-society.org/ From funthyme at gmail.com Fri Jan 23 17:01:53 2015 From: funthyme at gmail.com (John Pinner) Date: Fri, 23 Jan 2015 16:01:53 +0000 Subject: [EuroPython] [Off-Topic][Python job opportunity] looking for several full-time Python specialists in Berlin In-Reply-To: <54C20B62.4010506@europython.eu> References: <54C20B62.4010506@europython.eu> Message-ID: On 23 January 2015 at 08:50, M.-A. Lemburg wrote: > Hi Joachim, > > if you're recruiting, you will likely get better results by > sponsoring EuroPython and using th recruiting features of the > sponsor packages than posting on this list: > > http://ep2015.europython.eu/ > > or contact us directly: > > sponsoring at europython.eu +1 (and please don't spam the UK lists.) John -- From mal at europython.eu Fri Jan 30 12:00:43 2015 From: mal at europython.eu (M.-A. Lemburg) Date: Fri, 30 Jan 2015 12:00:43 +0100 Subject: [EuroPython] EuroPython 2015: New Code of Conduct Message-ID: <54CB645B.90707@europython.eu> For EuroPython 2015 we have chosen to use a new code of conduct (CoC) that is based on the PyCon UK Code of Conduct [1]. We think that it reads much nicer than the one we had before, while serving the same purpose. In summary: Be nice to each other --------------------- We trust that attendees will treat each other in a way that reflects the widely held view that diversity and friendliness are strengths of our community to be celebrated and fostered. Furthermore, we believe attendees have a right to: * be treated with courtesy, dignity and respect; * be free from any form of discrimination, victimization, harassment or bullying; * enjoy an environment free from unwelcome behavior, inappropriate language and unsuitable imagery. Here?s the permanent link to the CoC for 2015: EuroPython 2015 - Code of Conduct http://ep2015.europython.eu/coc/ We?d like to thank the PyCon UK organizers for their work on the CoC and for putting it under a CC license. [1] http://pyconuk.net/CodeOfConduct Thanks, -? EuroPython Society (EPS) http://www.europython-society.org/ From ntoll at ntoll.org Fri Jan 30 13:41:41 2015 From: ntoll at ntoll.org (Nicholas H.Tollervey) Date: Fri, 30 Jan 2015 12:41:41 +0000 Subject: [EuroPython] EuroPython 2015: New Code of Conduct In-Reply-To: <54CB645B.90707@europython.eu> References: <54CB645B.90707@europython.eu> Message-ID: <54CB7C05.2010303@ntoll.org> -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 Yay! :-) N. On 30/01/15 11:00, M.-A. Lemburg wrote: > For EuroPython 2015 we have chosen to use a new code of conduct > (CoC) that is based on the PyCon UK Code of Conduct [1]. > > We think that it reads much nicer than the one we had before, > while serving the same purpose. In summary: > > > Be nice to each other --------------------- > > We trust that attendees will treat each other in a way that > reflects the widely held view that diversity and friendliness are > strengths of our community to be celebrated and fostered. > > Furthermore, we believe attendees have a right to: > > * be treated with courtesy, dignity and respect; > > * be free from any form of discrimination, victimization, > harassment or bullying; > > * enjoy an environment free from unwelcome behavior, inappropriate > language and unsuitable imagery. > > > Here?s the permanent link to the CoC for 2015: > > EuroPython 2015 - Code of Conduct http://ep2015.europython.eu/coc/ > > We?d like to thank the PyCon UK organizers for their work on the > CoC and for putting it under a CC license. > > [1] http://pyconuk.net/CodeOfConduct > > Thanks, -? EuroPython Society (EPS) > http://www.europython-society.org/ > _______________________________________________ EuroPython mailing > list EuroPython at python.org > https://mail.python.org/mailman/listinfo/europython > -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.12 (GNU/Linux) iQEcBAEBAgAGBQJUy3wFAAoJEP0qBPaYQbb6PD0H/260CSPQVwke5UoAT22Vjna3 vOp/7pkcGqRowyNXZ8fBJWOTrI83Bw9By+5Oz10MCymKY+NG65zzVSaD24N4luKK vPjQJI8rUEwfduK4Hm3UnMhR7mNrHbmBixUPgflmQYlI85iABS7WzfdQo6a8/GNK owLtc7iHfEaXk9KCrUB/FqtzXq4/4uLcXjwHJLOoRO29ZePrIa+K/reNPPG56Wq2 mX3fXm6aIlHeOOn3vJzy9GAI7XjxvoOOkjxWLarIRrdHLJbrAalnAHj2rO4G0zXv 16iKz+kL4RGBSjwAw9lU7Pd8VOg71d4PzNWYF8zGs0s0GRgj+N8GwB4BZU0qRWw= =BW8F -----END PGP SIGNATURE----- From fklebczyk at gmail.com Fri Jan 30 17:00:32 2015 From: fklebczyk at gmail.com (=?UTF-8?B?RmlsaXAgS8WCxJliY3p5aw==?=) Date: Fri, 30 Jan 2015 17:00:32 +0100 Subject: [EuroPython] EuroPython 2015: New Code of Conduct In-Reply-To: <54CB645B.90707@europython.eu> References: <54CB645B.90707@europython.eu> Message-ID: <54CBAAA0.5020809@gmail.com> W dniu 30.01.2015 o 12:00, M.-A. Lemburg pisze: > Be nice to each other > --------------------- > > We trust that attendees will treat each other in a way that reflects > the widely held view that diversity and friendliness are strengths of > our community to be celebrated and fostered. > > Furthermore, we believe attendees have a right to: > > * be treated with courtesy, dignity and respect; > > * be free from any form of discrimination, victimization, harassment > or bullying; > > * enjoy an environment free from unwelcome behavior, inappropriate > language and unsuitable imagery. > > > Here?s the permanent link to the CoC for 2015: > > EuroPython 2015 - Code of Conduct > http://ep2015.europython.eu/coc/ Very good Code of Conduct - short, but thanks to it being a general one it covers everything important without going much into details. Very long Code of Conducts are less likely to be read and for example mentioning different kind of discrimination doesn't make so much sense as discrimination for _any_ reason is not ok and should not be tolerated in any situation. Besides, in the end what really matters is how well the CoC is executed when issues arise during the conference - for example how victims and offenders are approached by the organizers. I really would be open to hear how such situations are handled (of course without names) and what are the best practices in such cases. So big respect from my side for PyCon UK people that prepared this CoC. I think it is very probable that PyCon PL will also adopt this version. Regards, Filip