From jay at jays.net Sun Jan 11 13:23:08 2015 From: jay at jays.net (Jay Hannah) Date: Sun, 11 Jan 2015 15:23:08 -0600 Subject: [Omaha.pm] Fwd: Online Perl courses for PM list Newbies References: Message-ID: <207E1C5A-2459-4479-8C07-BE984354399B@jays.net> Good starter resource? :) j > ---------- Forwarded message ---------- > From: Andrew Solomon > To: pm_groups at pm.org > Cc: > Date: Sat, 10 Jan 2015 17:59:22 +0000 > Subject: Online Perl courses for PM list Newbies > Hi, > > First of all - apologies to San Francisco, London, Los Angeles, DFW, > Sydney, Vienna, Kochi, Melbourne, Dresden and Niederrhein who Google > tells me already know about Geekuni... > > For the last few years I've been developing Geekuni to provide an > automated online 'tutor-bot' to help new users learn Perl. > > I've been beta testing it on people at the London Perl Workshop as > well as graduate recruits at NET-A-PORTER - one of London's biggest > Perl shops. In November it went live to the public. > > Geekuni provides hands-on courses where people write Perl code on an > AWS instance and the tutor-bot reads and runs their code to give > them immediate feedback. This way, when they come to asking questions > on the various Perl forums they're past the point where they need to > be informed of things like: > > - strict and warnings are there to stop them shooting themselves in the foot; > - they shouldn't confuse lists with arrays; > - a reference isn't just something for your CV; > ... > > If this sounds like it would help for a smooth transition into your > Perl community, please point your newbies at geekuni.com > > To make them feel even more welcome, this coupon > > PM2015 > > will give them a 15% discount on their first month. > > If you'd like to check it out before giving it your stamp of approval, > please send me an email (andrew at geekuni.com) telling me you're a PM > group manager and I'll give you access. > > > Kind regards, > > > Andrew > -- > Andrew Solomon > > Mentor at Geekuni http://geekuni.com/ > http://www.linkedin.com/in/asolomon From matyas.cserhati at unmc.edu Thu Jan 15 15:52:27 2015 From: matyas.cserhati at unmc.edu (Cserhati, Matyas F) Date: Thu, 15 Jan 2015 23:52:27 +0000 Subject: [Omaha.pm] list of basic Perl modules to install Message-ID: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> Hi all! Got a simple question. I have to install some perl modules on a new, fresh, pristine server. I don't have a specific list, but what is good practice, which ones should I install? Thanks, Dr. Matthew Cserhati Department of Genetics, Cell Biology and Anatomy 985805 Nebraska Medical Center Omaha, NE 68198-5805 The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. -------------- next part -------------- An HTML attachment was scrubbed... URL: From matyas.cserhati at unmc.edu Thu Jan 15 15:35:39 2015 From: matyas.cserhati at unmc.edu (Cserhati, Matyas F) Date: Thu, 15 Jan 2015 23:35:39 +0000 Subject: [Omaha.pm] list of basic Perl modules to install Message-ID: <60262903F324914FA9177896E283608825D9A144@UNMCEX2.unmcresforest.org> Hi there all! Got a simple question. I have to install some perl modules on a new, fresh, pristine server. I don't have a specific list, but what is good practice, which ones should I install? Thanks, Dr. Matthew Cserhati Department of Genetics, Cell Biology and Anatomy 985805 Nebraska Medical Center Omaha, NE 68198-5805 The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. -------------- next part -------------- An HTML attachment was scrubbed... URL: From Payne at MattPayne.org Thu Jan 15 16:56:53 2015 From: Payne at MattPayne.org (Matt Payne) Date: Thu, 15 Jan 2015 18:56:53 -0600 Subject: [Omaha.pm] list of basic Perl modules to install In-Reply-To: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> References: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> Message-ID: Greetings! The last time I coded in PERL was 2012. Good times. Before that a whole lot in the mid and late 1990s. In 2012 I was really pleased with http://modernperlbooks.com There was another free book that helped a lot. There was a really nice way to create perl environments with a version manager http://perlbrew.pl/ I'm very interested in the real answer to your question. Google says things like: http://www.perlmonks.org/?node_id=771871 Good luck! Thanks! --Matt Payne On Thu, Jan 15, 2015 at 5:52 PM, Cserhati, Matyas F < matyas.cserhati at unmc.edu> wrote: > Hi all! > > > > Got a simple question. > > I have to install some perl modules on a new, fresh, pristine server. > > I don?t have a specific list, but what is good practice, which ones should > I install? > > > > Thanks, > > > > Dr. Matthew Cserhati > > Department of Genetics, Cell Biology and Anatomy > > 985805 Nebraska Medical Center > Omaha, NE 68198-5805 > > > > The information in this e-mail may be privileged and confidential, > intended only for the use of the addressee(s) above. Any unauthorized use > or disclosure of this information is prohibited. If you have received this > e-mail by mistake, please delete it and immediately contact the sender. > > _______________________________________________ > Omaha-pm mailing list > Omaha-pm at pm.org > http://mail.pm.org/mailman/listinfo/omaha-pm > -- --Matt Payne -------------- next part -------------- An HTML attachment was scrubbed... URL: From jay at jays.net Thu Jan 15 17:27:23 2015 From: jay at jays.net (Jay Hannah) Date: Thu, 15 Jan 2015 19:27:23 -0600 Subject: [Omaha.pm] list of basic Perl modules to install In-Reply-To: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> References: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> Message-ID: <58C0B25A-3AC0-43B8-89FD-2E1C990C4FD0@jays.net> On Jan 15, 2015, at 5:52 PM, Cserhati, Matyas F wrote: > I have to install some perl modules on a new, fresh, pristine server. > I don?t have a specific list, but what is good practice, which ones should I install? You might enjoy https://metacpan.org/pod/Modern::Perl :) j From matyas.cserhati at unmc.edu Thu Jan 15 17:27:47 2015 From: matyas.cserhati at unmc.edu (Cserhati, Matyas F) Date: Fri, 16 Jan 2015 01:27:47 +0000 Subject: [Omaha.pm] list of basic Perl modules to install In-Reply-To: <58C0B25A-3AC0-43B8-89FD-2E1C990C4FD0@jays.net> References: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> <58C0B25A-3AC0-43B8-89FD-2E1C990C4FD0@jays.net> Message-ID: <60262903F324914FA9177896E283608825D9A199@UNMCEX2.unmcresforest.org> Thanks you all! -----Original Message----- From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah Sent: Thursday, January 15, 2015 7:27 PM To: Perl Mongers of Omaha, Nebraska USA Subject: Re: [Omaha.pm] list of basic Perl modules to install On Jan 15, 2015, at 5:52 PM, Cserhati, Matyas F wrote: > I have to install some perl modules on a new, fresh, pristine server. > I don?t have a specific list, but what is good practice, which ones should I install? You might enjoy https://metacpan.org/pod/Modern::Perl :) j _______________________________________________ Omaha-pm mailing list Omaha-pm at pm.org http://mail.pm.org/mailman/listinfo/omaha-pm The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. From matyas.cserhati at unmc.edu Fri Jan 16 11:06:45 2015 From: matyas.cserhati at unmc.edu (Cserhati, Matyas F) Date: Fri, 16 Jan 2015 19:06:45 +0000 Subject: [Omaha.pm] list of basic Perl modules to install In-Reply-To: <58C0B25A-3AC0-43B8-89FD-2E1C990C4FD0@jays.net> References: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> <58C0B25A-3AC0-43B8-89FD-2E1C990C4FD0@jays.net> Message-ID: <60262903F324914FA9177896E283608825D9A2B0@UNMCEX2.unmcresforest.org> Dear Jay, I'm installing SeqLab, I downloaded it according to these instructions: https://biodoc.ist.unomaha.edu/wiki/SeqLab_%28Perl%29 But how do I install it so that it can run? Thanks, Matt p.s. do you have a normal version of Bioperl I can also install? -----Original Message----- From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah Sent: Thursday, January 15, 2015 7:27 PM To: Perl Mongers of Omaha, Nebraska USA Subject: Re: [Omaha.pm] list of basic Perl modules to install On Jan 15, 2015, at 5:52 PM, Cserhati, Matyas F wrote: > I have to install some perl modules on a new, fresh, pristine server. > I don?t have a specific list, but what is good practice, which ones should I install? You might enjoy https://metacpan.org/pod/Modern::Perl :) j _______________________________________________ Omaha-pm mailing list Omaha-pm at pm.org http://mail.pm.org/mailman/listinfo/omaha-pm The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. From andy at petdance.com Fri Jan 16 11:14:03 2015 From: andy at petdance.com (Andy Lester) Date: Fri, 16 Jan 2015 13:14:03 -0600 Subject: [Omaha.pm] list of basic Perl modules to install In-Reply-To: <60262903F324914FA9177896E283608825D9A2B0@UNMCEX2.unmcresforest.org> References: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> <58C0B25A-3AC0-43B8-89FD-2E1C990C4FD0@jays.net> <60262903F324914FA9177896E283608825D9A2B0@UNMCEX2.unmcresforest.org> Message-ID: <35B79DA2-E318-436F-B1EB-8AA3A66C67E6@petdance.com> On Jan 16, 2015, at 1:06 PM, Cserhati, Matyas F wrote: >> I have to install some perl modules on a new, fresh, pristine server. >> I don?t have a specific list, but what is good practice, which ones should I install? The best practice is to only install the modules that you actually need. There is no benefit to be gained in having a module installed that you never use. -- Andy Lester => www.petdance.com -------------- next part -------------- An HTML attachment was scrubbed... URL: From matyas.cserhati at unmc.edu Fri Jan 16 11:36:59 2015 From: matyas.cserhati at unmc.edu (Cserhati, Matyas F) Date: Fri, 16 Jan 2015 19:36:59 +0000 Subject: [Omaha.pm] Mycoalign Message-ID: <60262903F324914FA9177896E283608825D9A2D0@UNMCEX2.unmcresforest.org> Hi! Does anyone know where I can download Mycoalign? Matthew -----Original Message----- From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah Sent: Thursday, January 15, 2015 7:27 PM To: Perl Mongers of Omaha, Nebraska USA Subject: Re: [Omaha.pm] list of basic Perl modules to install On Jan 15, 2015, at 5:52 PM, Cserhati, Matyas F wrote: > I have to install some perl modules on a new, fresh, pristine server. > I don?t have a specific list, but what is good practice, which ones should I install? You might enjoy https://metacpan.org/pod/Modern::Perl :) j _______________________________________________ Omaha-pm mailing list Omaha-pm at pm.org http://mail.pm.org/mailman/listinfo/omaha-pm The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. From jay at jays.net Mon Jan 19 17:16:05 2015 From: jay at jays.net (Jay Hannah) Date: Mon, 19 Jan 2015 17:16:05 -0800 Subject: [Omaha.pm] Mycoalign In-Reply-To: <60262903F324914FA9177896E283608825D9A2D0@UNMCEX2.unmcresforest.org> References: <60262903F324914FA9177896E283608825D9A2D0@UNMCEX2.unmcresforest.org> Message-ID: <5CF06B17-C4C4-438F-8B1D-79120D394944@jays.net> Hmm... this one? http://biodoc.ist.unomaha.edu/wiki/Svn Looks like those SVN instructions used to work (2010), but I just tried and it's not working now? Dhundy "Kiran" might know? j > On Jan 16, 2015, at 11:36 AM, Cserhati, Matyas F wrote: > > Hi! > > Does anyone know where I can download Mycoalign? > > Matthew > > -----Original Message----- > From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah > Sent: Thursday, January 15, 2015 7:27 PM > To: Perl Mongers of Omaha, Nebraska USA > Subject: Re: [Omaha.pm] list of basic Perl modules to install > > On Jan 15, 2015, at 5:52 PM, Cserhati, Matyas F wrote: >> I have to install some perl modules on a new, fresh, pristine server. >> I don?t have a specific list, but what is good practice, which ones should I install? > > You might enjoy > > https://metacpan.org/pod/Modern::Perl > > :) > > j > > > > _______________________________________________ > Omaha-pm mailing list > Omaha-pm at pm.org > http://mail.pm.org/mailman/listinfo/omaha-pm > > The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. > _______________________________________________ > Omaha-pm mailing list > Omaha-pm at pm.org > http://mail.pm.org/mailman/listinfo/omaha-pm From matyas.cserhati at unmc.edu Tue Jan 20 07:41:09 2015 From: matyas.cserhati at unmc.edu (Cserhati, Matyas F) Date: Tue, 20 Jan 2015 15:41:09 +0000 Subject: [Omaha.pm] Mycoalign In-Reply-To: <5CF06B17-C4C4-438F-8B1D-79120D394944@jays.net> References: <60262903F324914FA9177896E283608825D9A2D0@UNMCEX2.unmcresforest.org> <5CF06B17-C4C4-438F-8B1D-79120D394944@jays.net> Message-ID: <60262903F324914FA9177896E283608825D9A662@UNMCEX2.unmcresforest.org> Hi, It just says to click on the link to i3bio, but when I do that's where the trail to the MycoAlign program leaves off. Matt -----Original Message----- From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah Sent: Monday, January 19, 2015 7:16 PM To: Perl Mongers of Omaha, Nebraska USA Cc: Bastola, Dhundy Subject: Re: [Omaha.pm] Mycoalign Hmm... this one? http://biodoc.ist.unomaha.edu/wiki/Svn Looks like those SVN instructions used to work (2010), but I just tried and it's not working now? Dhundy "Kiran" might know? j > On Jan 16, 2015, at 11:36 AM, Cserhati, Matyas F wrote: > > Hi! > > Does anyone know where I can download Mycoalign? > > Matthew > > -----Original Message----- > From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah > Sent: Thursday, January 15, 2015 7:27 PM > To: Perl Mongers of Omaha, Nebraska USA > Subject: Re: [Omaha.pm] list of basic Perl modules to install > > On Jan 15, 2015, at 5:52 PM, Cserhati, Matyas F wrote: >> I have to install some perl modules on a new, fresh, pristine server. >> I don?t have a specific list, but what is good practice, which ones should I install? > > You might enjoy > > https://metacpan.org/pod/Modern::Perl > > :) > > j > > > > _______________________________________________ > Omaha-pm mailing list > Omaha-pm at pm.org > http://mail.pm.org/mailman/listinfo/omaha-pm > > The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. > _______________________________________________ > Omaha-pm mailing list > Omaha-pm at pm.org > http://mail.pm.org/mailman/listinfo/omaha-pm _______________________________________________ Omaha-pm mailing list Omaha-pm at pm.org http://mail.pm.org/mailman/listinfo/omaha-pm From kiranbina at gmail.com Tue Jan 20 12:11:24 2015 From: kiranbina at gmail.com (Kiran Basutoland) Date: Tue, 20 Jan 2015 14:11:24 -0600 Subject: [Omaha.pm] Mycoalign In-Reply-To: <60262903F324914FA9177896E283608825D9A662@UNMCEX2.unmcresforest.org> References: <60262903F324914FA9177896E283608825D9A2D0@UNMCEX2.unmcresforest.org> <5CF06B17-C4C4-438F-8B1D-79120D394944@jays.net> <60262903F324914FA9177896E283608825D9A662@UNMCEX2.unmcresforest.org> Message-ID: <6AAC186E-18C0-4204-B987-8E0619969056@gmail.com> It is private -Kiran > On Jan 20, 2015, at 9:41 AM, Cserhati, Matyas F wrote: > > Hi, > > It just says to click on the link to i3bio, but when I do that's where the trail to the MycoAlign program leaves off. > > Matt > > -----Original Message----- > From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah > Sent: Monday, January 19, 2015 7:16 PM > To: Perl Mongers of Omaha, Nebraska USA > Cc: Bastola, Dhundy > Subject: Re: [Omaha.pm] Mycoalign > > Hmm... this one? > > http://biodoc.ist.unomaha.edu/wiki/Svn > > Looks like those SVN instructions used to work (2010), but I just tried and it's not working now? > > Dhundy "Kiran" might know? > > j > > > > >> On Jan 16, 2015, at 11:36 AM, Cserhati, Matyas F wrote: >> >> Hi! >> >> Does anyone know where I can download Mycoalign? >> >> Matthew >> >> -----Original Message----- >> From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah >> Sent: Thursday, January 15, 2015 7:27 PM >> To: Perl Mongers of Omaha, Nebraska USA >> Subject: Re: [Omaha.pm] list of basic Perl modules to install >> >>> On Jan 15, 2015, at 5:52 PM, Cserhati, Matyas F wrote: >>> I have to install some perl modules on a new, fresh, pristine server. >>> I don?t have a specific list, but what is good practice, which ones should I install? >> >> You might enjoy >> >> https://metacpan.org/pod/Modern::Perl >> >> :) >> >> j >> >> >> >> _______________________________________________ >> Omaha-pm mailing list >> Omaha-pm at pm.org >> http://mail.pm.org/mailman/listinfo/omaha-pm >> >> The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. >> _______________________________________________ >> Omaha-pm mailing list >> Omaha-pm at pm.org >> http://mail.pm.org/mailman/listinfo/omaha-pm > > _______________________________________________ > Omaha-pm mailing list > Omaha-pm at pm.org > http://mail.pm.org/mailman/listinfo/omaha-pm > _______________________________________________ > Omaha-pm mailing list > Omaha-pm at pm.org > http://mail.pm.org/mailman/listinfo/omaha-pm From jay at jays.net Tue Jan 20 15:15:36 2015 From: jay at jays.net (Jay Hannah) Date: Tue, 20 Jan 2015 17:15:36 -0600 Subject: [Omaha.pm] list of basic Perl modules to install In-Reply-To: <60262903F324914FA9177896E283608825D9A2B0@UNMCEX2.unmcresforest.org> References: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> <58C0B25A-3AC0-43B8-89FD-2E1C990C4FD0@jays.net> <60262903F324914FA9177896E283608825D9A2B0@UNMCEX2.unmcresforest.org> Message-ID: <3D9A575F-9923-47BC-A963-66EF14DEB9CA@jays.net> On Jan 16, 2015, at 11:06 AM, Cserhati, Matyas F wrote: > I'm installing SeqLab, I downloaded it according to these instructions: > > https://biodoc.ist.unomaha.edu/wiki/SeqLab_%28Perl%29 > > But how do I install it so that it can run? svn checkout https://clabsvn.ist.unomaha.edu/anonsvn/user/jhannah/UNO/seqlab > p.s. do you have a normal version of Bioperl I can also install? I don't "install" it, I just use the Bioperl source code from github: https://github.com/bioperl/bioperl-live But the official answer is http://www.bioperl.org/wiki/Installing_BioPerl Does that help? j From matyas.cserhati at unmc.edu Tue Jan 20 15:16:18 2015 From: matyas.cserhati at unmc.edu (Cserhati, Matyas F) Date: Tue, 20 Jan 2015 23:16:18 +0000 Subject: [Omaha.pm] list of basic Perl modules to install In-Reply-To: <3D9A575F-9923-47BC-A963-66EF14DEB9CA@jays.net> References: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> <58C0B25A-3AC0-43B8-89FD-2E1C990C4FD0@jays.net> <60262903F324914FA9177896E283608825D9A2B0@UNMCEX2.unmcresforest.org> <3D9A575F-9923-47BC-A963-66EF14DEB9CA@jays.net> Message-ID: <60262903F324914FA9177896E283608825D9A804@UNMCEX2.unmcresforest.org> I'll try but I think It should. Thanks. -----Original Message----- From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah Sent: Tuesday, January 20, 2015 5:16 PM To: Perl Mongers of Omaha, Nebraska USA Subject: Re: [Omaha.pm] list of basic Perl modules to install On Jan 16, 2015, at 11:06 AM, Cserhati, Matyas F wrote: > I'm installing SeqLab, I downloaded it according to these instructions: > > https://biodoc.ist.unomaha.edu/wiki/SeqLab_%28Perl%29 > > But how do I install it so that it can run? svn checkout https://clabsvn.ist.unomaha.edu/anonsvn/user/jhannah/UNO/seqlab > p.s. do you have a normal version of Bioperl I can also install? I don't "install" it, I just use the Bioperl source code from github: https://github.com/bioperl/bioperl-live But the official answer is http://www.bioperl.org/wiki/Installing_BioPerl Does that help? j _______________________________________________ Omaha-pm mailing list Omaha-pm at pm.org http://mail.pm.org/mailman/listinfo/omaha-pm The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. From dkbastola at unomaha.edu Mon Jan 19 17:53:16 2015 From: dkbastola at unomaha.edu (Dhundy Bastola) Date: Tue, 20 Jan 2015 01:53:16 +0000 Subject: [Omaha.pm] Mycoalign In-Reply-To: <5CF06B17-C4C4-438F-8B1D-79120D394944@jays.net> References: <60262903F324914FA9177896E283608825D9A2D0@UNMCEX2.unmcresforest.org>, <5CF06B17-C4C4-438F-8B1D-79120D394944@jays.net> Message-ID: Mycoalign is Not public -Kiran > On Jan 19, 2015, at 7:16 PM, Jay Hannah wrote: > > Hmm... this one? > > http://biodoc.ist.unomaha.edu/wiki/Svn > > Looks like those SVN instructions used to work (2010), but I just tried and it's not working now? > > Dhundy "Kiran" might know? > > j > > > > >> On Jan 16, 2015, at 11:36 AM, Cserhati, Matyas F wrote: >> >> Hi! >> >> Does anyone know where I can download Mycoalign? >> >> Matthew >> >> -----Original Message----- >> From: Omaha-pm [mailto:omaha-pm-bounces+matyas.cserhati=unmc.edu at pm.org] On Behalf Of Jay Hannah >> Sent: Thursday, January 15, 2015 7:27 PM >> To: Perl Mongers of Omaha, Nebraska USA >> Subject: Re: [Omaha.pm] list of basic Perl modules to install >> >>> On Jan 15, 2015, at 5:52 PM, Cserhati, Matyas F wrote: >>> I have to install some perl modules on a new, fresh, pristine server. >>> I don?t have a specific list, but what is good practice, which ones should I install? >> >> You might enjoy >> >> https://metacpan.org/pod/Modern::Perl >> >> :) >> >> j >> >> >> >> _______________________________________________ >> Omaha-pm mailing list >> Omaha-pm at pm.org >> http://mail.pm.org/mailman/listinfo/omaha-pm >> >> The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender. >> _______________________________________________ >> Omaha-pm mailing list >> Omaha-pm at pm.org >> http://mail.pm.org/mailman/listinfo/omaha-pm > From jay at jays.net Tue Jan 20 15:32:55 2015 From: jay at jays.net (Jay Hannah) Date: Tue, 20 Jan 2015 17:32:55 -0600 Subject: [Omaha.pm] list of basic Perl modules to install In-Reply-To: <3D9A575F-9923-47BC-A963-66EF14DEB9CA@jays.net> References: <60262903F324914FA9177896E283608825D9A161@UNMCEX2.unmcresforest.org> <58C0B25A-3AC0-43B8-89FD-2E1C990C4FD0@jays.net> <60262903F324914FA9177896E283608825D9A2B0@UNMCEX2.unmcresforest.org> <3D9A575F-9923-47BC-A963-66EF14DEB9CA@jays.net> Message-ID: On Jan 16, 2015, at 11:06 AM, Cserhati, Matyas F wrote: > p.s. do you have a normal version of Bioperl I can also install? bioperl-l is the main mailing list. Looks like there's been some movement regarding installs this week: https://groups.google.com/forum/#!topic/bioperl-l/PjHxzBe0bj8 Hope that helps, j From jay at jays.net Tue Jan 20 15:38:42 2015 From: jay at jays.net (Jay Hannah) Date: Tue, 20 Jan 2015 17:38:42 -0600 Subject: [Omaha.pm] Jan 27 meeting Message-ID: http://code.omahamakergroup.org/ Howdy! It's that time again next week. Do people have things they want to present? Lightning talks? j From jay at jays.net Wed Jan 21 10:13:44 2015 From: jay at jays.net (Jay Hannah) Date: Wed, 21 Jan 2015 12:13:44 -0600 Subject: [Omaha.pm] [olug] Needed: Feb OLUG Presenter In-Reply-To: References: Message-ID: <5CC9DC20-7874-4060-8C3D-F50958F4867D@jays.net> On Jan 21, 2015, at 6:47 AM, Jon Larsen wrote: > Can anyone present at the February OLUG Meeting? Jay, you expressed > talking about Perl in December, is this too short of a notice? http://olug.org/ "Error establishing a database connection" What's the date? Sure, I'm always happy to talk about Perl. :) Any specific topics people are interested in? I think the last talk I gave was on web development with Catalyst? Maybe a tour of new stuff in perl 5.21.8 which was released yesterday? http://www.nntp.perl.org/group/perl.perl5.porters/2015/01/msg224869.html Don't know what people are interested in. :) Thanks, Jay Hannah Project Lead / Programmer http://www.iinteractive.com Email: jay.hannah at iinteractive.com AOL IM: deafferret Mobile: 1.402.598.7782 Fax: 1.402.691.9496 From jay at jays.net Mon Jan 26 13:45:42 2015 From: jay at jays.net (Jay Hannah) Date: Mon, 26 Jan 2015 15:45:42 -0600 Subject: [Omaha.pm] [OMG!Code] Jan 27 meeting - Elevator Saga hack night (Javascript) In-Reply-To: References: Message-ID: <921455A6-00B8-4B36-89BE-4B7D005F1A6C@jays.net> I was thinking co-op would be more fun :) See you at 7! :) j > On Jan 23, 2015, at 9:21 AM, David Knaack wrote: > > That looks like fun. Head-to-head or collaborative? > > On Fri, Jan 23, 2015 at 8:46 AM, Jay Hannah wrote: > > lol awesome. I propose next week's meeting be a hack night: > > http://play.elevatorsaga.com/. :D > > The goal is to transport people in an efficient manner. > Depending on how well you do it, you can progress through the ever more difficult challenges. > Only the very best programs will be able to complete all the challenges. > > See you there! :) > > j > > > > On Tuesday, January 20, 2015, Jay Hannah wrote: > http://code.omahamakergroup.org/ > > Howdy! It's that time again next week. Do people have things they want to present? Lightning talks? > > j > > From james.harr at gmail.com Tue Jan 27 15:41:32 2015 From: james.harr at gmail.com (James Harr) Date: Tue, 27 Jan 2015 23:41:32 +0000 Subject: [Omaha.pm] [OMG!Code] Jan 27 meeting - Elevator Saga hack night (Javascript) References: <921455A6-00B8-4B36-89BE-4B7D005F1A6C@jays.net> Message-ID: Are we at the maker space tonight? If so, doors are open. On Mon, Jan 26, 2015, 15:45 Jay Hannah wrote: > I was thinking co-op would be more fun :) > > See you at 7! :) > > j > > > > > > On Jan 23, 2015, at 9:21 AM, David Knaack wrote: > > > > That looks like fun. Head-to-head or collaborative? > > > > On Fri, Jan 23, 2015 at 8:46 AM, Jay Hannah wrote: > > > > lol awesome. I propose next week's meeting be a hack night: > > > > http://play.elevatorsaga.com/. :D > > > > The goal is to transport people in an efficient manner. > > Depending on how well you do it, you can progress through the ever more > difficult challenges. > > Only the very best programs will be able to complete all the challenges. > > > > See you there! :) > > > > j > > > > > > > > On Tuesday, January 20, 2015, Jay Hannah wrote: > > http://code.omahamakergroup.org/ > > > > Howdy! It's that time again next week. Do people have things they want > to present? Lightning talks? > > > > j > > > > > > -- > OMG!Code http://code.omahamakergroup.org > --- > You received this message because you are subscribed to the Google Groups > "OMG!Code" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to omg-code+unsubscribe at googlegroups.com. > Visit this group at http://groups.google.com/group/omg-code. > For more options, visit https://groups.google.com/d/optout. > -------------- next part -------------- An HTML attachment was scrubbed... URL: From jay at jays.net Wed Jan 28 12:21:09 2015 From: jay at jays.net (Jay Hannah) Date: Wed, 28 Jan 2015 14:21:09 -0600 Subject: [Omaha.pm] "reply" - REPL for Perl Message-ID: Has anyone tried "reply"? https://metacpan.org/pod/distribution/Reply/bin/reply I'm an old school "perl -d -e 1" guy, but I've heard good things... :) j From swflint at flintfam.org Wed Jan 28 13:07:12 2015 From: swflint at flintfam.org (Samuel W. Flint) Date: Wed, 28 Jan 2015 15:07:12 -0600 Subject: [Omaha.pm] "reply" - REPL for Perl In-Reply-To: References: Message-ID: <31D7A4A5-D498-4B10-A6FC-9E41540B9A57@flintfam.org> What it needs is a SWANK implementation. That way I could just use SLIME... Samuel W. Flint Please forgive any typos as this was composed on a screen keyboard. > On Jan 28, 2015, at 2:21 PM, Jay Hannah wrote: > > Has anyone tried "reply"? > > https://metacpan.org/pod/distribution/Reply/bin/reply > > I'm an old school "perl -d -e 1" guy, but I've heard good things... :) > > j > > > > _______________________________________________ > Omaha-pm mailing list > Omaha-pm at pm.org > http://mail.pm.org/mailman/listinfo/omaha-pm From jay at jays.net Wed Jan 28 14:20:03 2015 From: jay at jays.net (Jay Hannah) Date: Wed, 28 Jan 2015 16:20:03 -0600 Subject: [Omaha.pm] [OLUG] Feb 3 6:30: What's new in Perl? In-Reply-To: References: Message-ID: On 2015-01-27 10:24, Jon Larsen wrote: > Jay, can you do Feb 3rd on the new Perl details. Yup! I'll give a whirlwind tour of some cool new stuff in Perl. :) Perl 5.21.8 released! http://www.nntp.perl.org/group/perl.perl5.porters/2015/01/msg224869.html Survey: What version of perl are YOU using? perl -v $ perlbrew install 5.21.8 j From ross.nelson at gmail.com Wed Jan 28 14:32:54 2015 From: ross.nelson at gmail.com (Ross Nelson) Date: Wed, 28 Jan 2015 16:32:54 -0600 Subject: [Omaha.pm] [olug] [OLUG] Feb 3 6:30: What's new in Perl? In-Reply-To: References: Message-ID: 5.18.2, which is shipped with OS X 10.10 I tried to install the latest as shown above, but this happened: rnelson at boxer ~ $ perlbrew install 5.21.8 && perlbrew switch 5.21.8 Fetching perl 5.21.8 as /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 Download http://www.cpan.org/src/5.0/perl-5.21.8.tar.bz2 to /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 sh: tar: command not found Failed to extract /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 at /Users/rnelson/perl5/perlbrew/bin/perlbrew line 963. rnelson at boxer ~ $ which tar -bash: which: command not found rnelson at boxer ~ $ It took /usr/bin out of $PATH and then broke when tar (which lives at /usr/bin/tar) wasn't found. On Wed, Jan 28, 2015 at 4:20 PM, Jay Hannah wrote: > On 2015-01-27 10:24, Jon Larsen wrote: > > Jay, can you do Feb 3rd on the new Perl details. > > Yup! I'll give a whirlwind tour of some cool new stuff in Perl. :) > > Perl 5.21.8 released! > > http://www.nntp.perl.org/group/perl.perl5.porters/2015/01/msg224869.html > > Survey: What version of perl are YOU using? perl -v > > $ perlbrew install 5.21.8 > > j > > > > > _______________________________________________ > OLUG mailing list > OLUG at olug.org > https://lists.olug.org/mailman/listinfo/olug > -------------- next part -------------- An HTML attachment was scrubbed... URL: From jay at jays.net Wed Jan 28 15:38:45 2015 From: jay at jays.net (Jay Hannah) Date: Wed, 28 Jan 2015 17:38:45 -0600 Subject: [Omaha.pm] [olug] Feb 3 6:30: What's new in Perl? In-Reply-To: References: Message-ID: Huh, really? Bummer... Is /usr/bin in your $PATH when you start a fresh shell? "perlbrew env" seems to show me that it doesn't change $PATH? ? jhannah-Air:~ which tar /usr/bin/tar ? jhannah-Air:~ perlbrew list perl-5.20.1 * perl-5.21.8 ? jhannah-Air:~ perlbrew env export PERLBREW_PATH="/Users/jhannah/perl5/perlbrew/bin" unset PERLBREW_PERL export PERLBREW_ROOT="/Users/jhannah/perl5/perlbrew" export PERLBREW_VERSION="0.71" Ponder, j On Jan 28, 2015, at 4:32 PM, Ross Nelson wrote: > 5.18.2, which is shipped with OS X 10.10 > > I tried to install the latest as shown above, but this happened: > > rnelson at boxer ~ $ perlbrew install 5.21.8 && perlbrew switch 5.21.8 > Fetching perl 5.21.8 as > /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 > Download http://www.cpan.org/src/5.0/perl-5.21.8.tar.bz2 to > /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 > sh: tar: command not found > Failed to extract /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 > at /Users/rnelson/perl5/perlbrew/bin/perlbrew line 963. > rnelson at boxer ~ $ which tar > -bash: which: command not found > rnelson at boxer ~ $ > > It took /usr/bin out of $PATH and then broke when tar (which lives at > /usr/bin/tar) wasn't found. From ross.nelson at gmail.com Wed Jan 28 15:42:26 2015 From: ross.nelson at gmail.com (Ross Nelson) Date: Wed, 28 Jan 2015 17:42:26 -0600 Subject: [Omaha.pm] [olug] Feb 3 6:30: What's new in Perl? In-Reply-To: References: Message-ID: It's in there unless I source the perlbrew file, at which point it strips it out. I think I found the problem though. There's a space in one of the paths in there (/Applications/Free PGI.app/bin/?), and __perlbrew_purify() stops at that point. On Wed, Jan 28, 2015 at 5:38 PM, Jay Hannah wrote: > Huh, really? Bummer... > > Is /usr/bin in your $PATH when you start a fresh shell? > > "perlbrew env" seems to show me that it doesn't change $PATH? > > ? jhannah-Air:~ which tar > /usr/bin/tar > ? jhannah-Air:~ perlbrew list > perl-5.20.1 > * perl-5.21.8 > ? jhannah-Air:~ perlbrew env > export PERLBREW_PATH="/Users/jhannah/perl5/perlbrew/bin" > unset PERLBREW_PERL > export PERLBREW_ROOT="/Users/jhannah/perl5/perlbrew" > export PERLBREW_VERSION="0.71" > > Ponder, > > j > > > > > On Jan 28, 2015, at 4:32 PM, Ross Nelson wrote: > > 5.18.2, which is shipped with OS X 10.10 > > > > I tried to install the latest as shown above, but this happened: > > > > rnelson at boxer ~ $ perlbrew install 5.21.8 && perlbrew switch 5.21.8 > > Fetching perl 5.21.8 as > > /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 > > Download http://www.cpan.org/src/5.0/perl-5.21.8.tar.bz2 to > > /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 > > sh: tar: command not found > > Failed to extract /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 > > at /Users/rnelson/perl5/perlbrew/bin/perlbrew line 963. > > rnelson at boxer ~ $ which tar > > -bash: which: command not found > > rnelson at boxer ~ $ > > > > It took /usr/bin out of $PATH and then broke when tar (which lives at > > /usr/bin/tar) wasn't found. > > _______________________________________________ > OLUG mailing list > OLUG at olug.org > https://lists.olug.org/mailman/listinfo/olug > -------------- next part -------------- An HTML attachment was scrubbed... URL: From jay at jays.net Wed Jan 28 15:47:02 2015 From: jay at jays.net (Jay Hannah) Date: Wed, 28 Jan 2015 17:47:02 -0600 Subject: [Omaha.pm] [olug] Feb 3 6:30: What's new in Perl? In-Reply-To: References: Message-ID: <884D2F94-E464-4B59-A57D-DBCB5D6BD89E@jays.net> Ah, yup. Known issue: https://rt.cpan.org/Public/Bug/Display.html?id=73476 Bug #73476 for App-perlbrew: does not work with spaces in PATH Patches welcome, I'm sure. :) j > On Jan 28, 2015, at 5:42 PM, Ross Nelson wrote: > > It's in there unless I source the perlbrew file, at which point it strips it out. > > I think I found the problem though. There's a space in one of the paths in there (/Applications/Free PGI.app/bin/?), and __perlbrew_purify() stops at that point. > > On Wed, Jan 28, 2015 at 5:38 PM, Jay Hannah wrote: > Huh, really? Bummer... > > Is /usr/bin in your $PATH when you start a fresh shell? > > "perlbrew env" seems to show me that it doesn't change $PATH? > > ? jhannah-Air:~ which tar > /usr/bin/tar > ? jhannah-Air:~ perlbrew list > perl-5.20.1 > * perl-5.21.8 > ? jhannah-Air:~ perlbrew env > export PERLBREW_PATH="/Users/jhannah/perl5/perlbrew/bin" > unset PERLBREW_PERL > export PERLBREW_ROOT="/Users/jhannah/perl5/perlbrew" > export PERLBREW_VERSION="0.71" > > Ponder, > > j > > > > > On Jan 28, 2015, at 4:32 PM, Ross Nelson wrote: > > 5.18.2, which is shipped with OS X 10.10 > > > > I tried to install the latest as shown above, but this happened: > > > > rnelson at boxer ~ $ perlbrew install 5.21.8 && perlbrew switch 5.21.8 > > Fetching perl 5.21.8 as > > /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 > > Download http://www.cpan.org/src/5.0/perl-5.21.8.tar.bz2 to > > /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 > > sh: tar: command not found > > Failed to extract /Users/rnelson/perl5/perlbrew/dists/perl-5.21.8.tar.bz2 > > at /Users/rnelson/perl5/perlbrew/bin/perlbrew line 963. > > rnelson at boxer ~ $ which tar > > -bash: which: command not found > > rnelson at boxer ~ $ > > > > It took /usr/bin out of $PATH and then broke when tar (which lives at > > /usr/bin/tar) wasn't found. > > _______________________________________________ > OLUG mailing list > OLUG at olug.org > https://lists.olug.org/mailman/listinfo/olug > > _______________________________________________ > Omaha-pm mailing list > Omaha-pm at pm.org > http://mail.pm.org/mailman/listinfo/omaha-pm