[GenABEL-dev] ProbABEL: Binaries without extension

[L.C. Karssen]

On 11-12-13 13:58, Maarten Kooyman wrote:
> 
> I think the solution of Maksim is quite workable. The minimal time to
> push this change is at least a half year: this buys time for users to
> update their pipeline.

I agree.


Lennart.

> 
> Maarten Kooyman
>  On 12/11/2013 01:53 PM, Yurii Aulchenko wrote:
> 
>> Question which probably supports Maxim's suggestion: How will this
>> affect existing user pipelines?
>>
>> ----------------------
>> Yurii Aulchenko 
>> (sent from mobile device)
>>
>> On Dec 11, 2013, at 13:22, Maksim Struchalin <m.v.struchalin at mail.ru
>> <mailto:m.v.struchalin at mail.ru>> wrote:
>>
>>> Hi Lennart,
>>>
>>> For me, it sounds reasonable to remove the file extensions.
>>> About probabel.pl <http://probabel.pl>: we can provide both
>>> 'probabel.pl <http://probabel.pl>' and 'probabel' for the next few
>>> revisions (if it is possible). In this case, if users run
>>> 'probabel.pl <http://probabel.pl>', we show a warning messages saying
>>> that they need to use 'probabel' instead of 'proabbel.pl
>>> <http://proabbel.pl>' and that 'probabel.pl <http://probabel.pl>'
>>> will be removed soon. Later, when most of users switched to
>>> 'probabel', we remove 'probabel.pl <http://probabel.pl>'.
>>>
>>> best,
>>> Maksim
>>>
>>>
>>>
>>>
>>> On 11/12/2013 18:08, L.C. Karssen wrote:
>>>> Dear list,
>>>>
>>>> While working on packaging ProbABEL for inclusion in Debian, I came
>>>> across the following warning in the Debian package check (using the
>>>> lintian program):
>>>>
>>>> W: probabel: script-with-language-extension usr/bin/extIDS.pl
>>>> W: probabel: script-with-language-extension usr/bin/probabel.pl <http://probabel.pl>
>>>>
>>>> The short explanation is this:
>>>>     When scripts are installed into a directory in the system PATH, the
>>>>     script name should not include an extension such as .sh or .pl that
>>>>     denotes the scripting language currently used to implement it. The
>>>>     implementation language may change; if it does, leaving the name the
>>>>     same would be confusing and changing it would be disruptive.
>>>>
>>>>
>>>> The reasoning behind this warning is the following:
>>>> There are several reasons for not having an extension in the name of a
>>>> binary/script, nicely listed in this post:
>>>>     http://lists.debian.org/debian-med/2012/04/msg00103.html
>>>> The most important one to me is:
>>>>     I do not see what actual information such extensions are
>>>>     providing to the end user.  A user expects a program to do a job.
>>>>     Fullstop.  The user does not need to care about the language a
>>>>     program is written in if it just does what it is expected to do.
>>>>
>>>>
>>>> So, for ProbABEL I propose the following:
>>>> - extIDS.pl is not used a lot, so we can safely remove the .pl extension
>>>> there (and update the manual, mention it in the ChangeLog and release notes)
>>>> - For probabel.pl <http://probabel.pl> this is different. Many people use it exclusively
>>>> instead of calling pa{linear,logist,coxph} directly and changing this
>>>> would mean breaking user experience completely. I think we do need to
>>>> remove the extension at some point in the future, but that would be in a
>>>> 'large' update, say v0.5, not in a minor one like the upcoming v0.4.2.
>>>>
>>>>
>>>> What do you think of this?
>>>>
>>>> Lennart.
>>>>
>>>>
>>>> --
>>>> *-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*
>>>> L.C. Karssen
>>>> Utrecht
>>>> The Netherlands
>>>>
>>>> lennart at karssen.org
>>>> http://blog.karssen.org
>>>> GPG key ID: A88F554A
>>>> -*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-
>>>>
>>>>
>>>>
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-- 
*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*
L.C. Karssen
Utrecht
The Netherlands

lennart at karssen.org
http://blog.karssen.org
GPG key ID: A88F554A
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