[OT - or may be not] The case for open computer programs

2012-05-29 Thread Andreas Tille
Hi, you might like to read: The case for open computer programs Darrel C. Ince, Leslie Hatton John Graham-Cumming Scientific communication relies on evidence that cannot be entirely included in publications, but the rise of computational science has added a new layer of inaccessibility.

Re: [OT - or may be not] The case for open computer programs

2012-05-29 Thread lina
On Tue, May 29, 2012 at 2:00 PM, Andreas Tille andr...@an3as.eu wrote: Hi, you might like to read: The case for open computer programs Darrel C. Ince, Leslie Hatton John Graham-Cumming Seems it's been recommended before in the list. Scientific communication relies on evidence that

Re: [OT - or may be not] The case for open computer programs

2012-05-29 Thread Oz Nahum Tiram
Hi All, Indeed strong words, published in Nature where you need to pay $32 to read what we all know already. Regards, Oz On Tue, May 29, 2012 at 8:00 AM, Andreas Tille andr...@an3as.eu wrote: Hi, you might like to read: The case for open computer programs Darrel C. Ince, Leslie Hatton

Re: question on hardening

2012-05-29 Thread Jan Beyer
Thanks to both of you, Andreas and Nicolas, for the fast help! Then I can upload soon. Best regards, Jan Und es begab sich am 28.05.2012 22:30, dass Nicolas Bourdaud schrieb: Hi Jan, On 28/05/2012 20:54, Jan Beyer wrote: Lintian complains several times similar to this: -- W:

Re: [OT - or may be not] The case for open computer programs

2012-05-29 Thread Luis Ibanez
What is more interesting is the reaction that followed in serious scientific journals: 1) PLoS ONE (the Open Access Mega Journal that currently publishes 3% of all the STM literature) now requires software papers to include the source code under an Open Source license:

use of json.org in biojava3-ws

2012-05-29 Thread Olivier Sallou
Hi, biojava3 makes use of json.org library. this library is not packaged in Debian. After a google, I saw old posts saying that library is (was?) not compliant regarding its license [0]. Though, after a quick look on their web site I do not see any restriction. Can anyone tell me is something

Re: use of json.org in biojava3-ws

2012-05-29 Thread Niels Thykier
On 2012-05-29 13:59, Olivier Sallou wrote: Hi, biojava3 makes use of json.org library. this library is not packaged in Debian. After a google, I saw old posts saying that library is (was?) not compliant regarding its license [0]. Though, after a quick look on their web site I do not see any

Re: use of json.org in biojava3-ws

2012-05-29 Thread Andreas Tille
On Tue, May 29, 2012 at 02:03:27PM +0200, Niels Thykier wrote: On 2012-05-29 13:59, Olivier Sallou wrote: Hi, biojava3 makes use of json.org library. this library is not packaged in Debian. After a google, I saw old posts saying that library is (was?) not compliant regarding its license

Re: use of json.org in biojava3-ws

2012-05-29 Thread Mehdi Dogguy
On 29/05/12 14:17, Andreas Tille wrote: On Tue, May 29, 2012 at 02:03:27PM +0200, Niels Thykier wrote: On 2012-05-29 13:59, Olivier Sallou wrote: Hi, biojava3 makes use of json.org library. this library is not packaged in Debian. After a google, I saw old posts saying that library is (was?)

Re: use of json.org in biojava3-ws

2012-05-29 Thread Paul Wise
On Tue, May 29, 2012 at 8:17 PM, Andreas Tille wrote: I'd call this an over-picky interpretation of something that rather qualifies as a joke rather than a license which can be dealt with in court (disclaimer: I'm not a lawyer, just try to apply common sense.) I'd like to answer this kind of

Re: use of json.org in biojava3-ws

2012-05-29 Thread Andreas Tille
On Tue, May 29, 2012 at 08:31:46PM +0800, Paul Wise wrote: The definition of evil is subjective and could refer to anything, including the production of Debian itself. Sure and a statement like the given one is pure non-sense without any definition and its just a matter if you care about

Re: use of json.org in biojava3-ws

2012-05-29 Thread Paul Wise
On Tue, May 29, 2012 at 9:28 PM, Andreas Tille wrote: On Tue, May 29, 2012 at 08:31:46PM +0800, Paul Wise wrote: The definition of evil is subjective and could refer to anything, including the production of Debian itself. Sure and a statement like the given one is pure non-sense without any

Re: use of json.org in biojava3-ws

2012-05-29 Thread Niels Thykier
On 2012-05-29 15:46, Paul Wise wrote: [...] The short summary seems to be: We need to contact the authors and I hope somebody will be willing to take his time on it. Indeed. Most likely, that would be a waste of time[1] ~Niels [1]

Re: use of json.org in biojava3-ws

2012-05-29 Thread Andreas Tille
On Tue, May 29, 2012 at 04:25:51PM +0200, Niels Thykier wrote: On 2012-05-29 15:46, Paul Wise wrote: [...] The short summary seems to be: We need to contact the authors and I hope somebody will be willing to take his time on it. Indeed. Most likely, that would be a waste of

Re: use of json.org in biojava3-ws

2012-05-29 Thread Olivier Sallou
Le 5/29/12 4:44 PM, Andreas Tille a écrit : On Tue, May 29, 2012 at 04:25:51PM +0200, Niels Thykier wrote: On 2012-05-29 15:46, Paul Wise wrote: [...] The short summary seems to be: We need to contact the authors and I hope somebody will be willing to take his time on it. Indeed. Most

Re: use of json.org in biojava3-ws

2012-05-29 Thread Olivier Sallou
Le 5/29/12 4:48 PM, Olivier Sallou a écrit : Le 5/29/12 4:44 PM, Andreas Tille a écrit : On Tue, May 29, 2012 at 04:25:51PM +0200, Niels Thykier wrote: On 2012-05-29 15:46, Paul Wise wrote: [...] The short summary seems to be: We need to contact the authors and I hope somebody will be

Re: use of json.org in biojava3-ws

2012-05-29 Thread Steffen Möller
On 05/29/2012 02:23 PM, Mehdi Dogguy wrote: On 29/05/12 14:17, Andreas Tille wrote: On Tue, May 29, 2012 at 02:03:27PM +0200, Niels Thykier wrote: On 2012-05-29 13:59, Olivier Sallou wrote: Hi, biojava3 makes use of json.org library. this library is not packaged in Debian. After a google, I

Re: [OT - or may be not] The case for open computer programs

2012-05-29 Thread Yaroslav Halchenko
If you have 15$ left have you read the Nature paper, then you could also read less particular about details version of the same thing from Science: http://www.sciencemag.org/content/336/6078/159.full Research Priorities Shining Light into Black Boxes A. Morin, J. Urban, P. D. Adams, I. Foster, A.

Re: [OT - or may be not] The case for open computer programs

2012-05-29 Thread Michael Hanke
On Tue, May 29, 2012 at 08:00:57AM +0200, Andreas Tille wrote: http://www.nature.com/nature/journal/v482/n7386/full/nature10836.html In case you don't want to pay Nature to read about this, you can alternatively pay Science... http://www.sciencemag.org/content/336/6078/159 -- Michael Hanke

Re: [OT - or may be not] The case for open computer programs

2012-05-29 Thread Brendon Higgins
Hi, Yaroslav Halchenko wrote (May 29, 2012): If you have 15$ left have you read the Nature paper, then you could also read less particular about details version of the same thing from Science: http://www.sciencemag.org/content/336/6078/159.full [snip] Meanwhile we can just keep going

FreeMedForms RPath issue

2012-05-29 Thread Eric MAEKER
Hi all, Thanks Andreas to review and upload the freemedforms-project source package. Like all times, your help is really appreciated !! I saw in the changelog that you tried to work on a rpath issue: [ Andreas Tille ] * debian/patches/delete_rpath.patch: Try to avoid RPATH issue but

Re: [OT - or may be not] The case for open computer programs

2012-05-29 Thread Luis Ibanez
On Tue, May 29, 2012 at 2:55 PM, Brendon Higgins blhigg...@gmail.comwrote: Ideally the whole system should be open, not just the chunk of code unique to each experiment. +1 Luis

Re: FreeMedForms RPath issue

2012-05-29 Thread Andreas Tille
Hi, On Tue, May 29, 2012 at 09:33:56PM +0200, Eric MAEKER wrote: I saw in the changelog that you tried to work on a rpath issue: [ Andreas Tille ] * debian/patches/delete_rpath.patch: Try to avoid RPATH issue but failed Do you want to remove all rpath definition and add to

Re: [OT - or may be not] The case for open computer programs

2012-05-29 Thread Yaroslav Halchenko
On Tue, 29 May 2012, Brendon Higgins wrote: http://www.sciencemag.org/content/336/6078/159.full [snip] Meanwhile we can just keep going forward making it all possible ;) ... In this context, open _code_ and open _platforms_ are two different (albeit related) beasts. ... Ideally the