[GenABEL-dev] ProbABEL: Binaries without extension

[Maarten Kooyman]

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.

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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>>> genabel-devel at lists.r-forge.r-project.org
>>> https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/genabel-devel
>>
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