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Re: removing tophat from Debian



that also means there is a need for the maintainers of packages such as galaxy or taverna to be notified  and/or make sure when used in a pipeline tophat throws a yuge error.

On Sat, Dec 16, 2017 at 8:00 PM, Fabian Klötzl <kloetzl@evolbio.mpg.de> wrote:
Hi,

On 16.12.2017 15:40, george@marsel.is wrote:
> There are **plenty** of bioinformaticians and sysadmins, especially
> downstream of Debian who will say “I need tophat”, without being able to
> explain why they do.
>
>  
>
> Migration path, big announcement, large time path so everybody gets
> comfortable with it, some sort of way of making sure that google indexes
> the announcement as the first result when someone searches for it.


I agree, that some people might be dependent on tophat and we should not
remove an essential components of their workflow. If we want to remove
tophat, we should make it print a warning like “[WARNING] Stop using
tophat: http://some-explanatory.url/”. After that has been out for a few
months, we could make tophat always exit with a non-zero state as to
intentionally break ppls. workflows and make them read the error
message. Finally, after such a grace period, removal might be valid.

Best,
Fabian


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