[Debian-med-packaging] No resources folder in bbmap package

[Andreas Tille]

Hi Aaron,

Am Thu, Jan 25, 2024 at 05:07:38PM +0000 schrieb Dickey, Aaron - REE-ARS, NE:
> Hi Andreas, Here is a reproducible example if you consider it a bug:
> 
> #Directory & File not found with package in Debian latest
> 
> `apt install bbmap; find / -type d -name 'resources'; find / -type f -name 'adapters.fa' `

As per the bug reporter the patch was to include the resources inside
the JAR file which is done by the suggested patch.  Your check does not
fit this but you can try

$ unzip -l /usr/share/java/bbmap.jar | grep adapters.fa
    14255  2023-11-24 10:55   adapters.fa
      130  2023-11-24 10:55   phix_adapters.fa.gz

> #Directory & File found with wget from source
> 
> `apt install wget; wget https://sourceforge.net/projects/bbmap/files/latest/download; tar zxvf download; find / -type d -name 'resources'; find / -type f -name 'adapters.fa' `

I repeat my suggestion you file a proper bug report and a command line
which shows what is not working.

Kind regards
    Andreas, 
 
> From: Andreas Tille <andreas at an3as.eu>
> Date: Thursday, January 25, 2024 at 10:14 AM
> To: Dickey, Aaron - REE-ARS, NE <aaron.dickey at usda.gov>
> Cc: bbmap at packages.debian.org <bbmap at packages.debian.org>
> Subject: Re: No resources folder in bbmap package
> Hi Aaron,
> 
> Am Thu, Jan 25, 2024 at 03:02:05PM +0000 schrieb Dickey, Aaron - REE-ARS, NE:
> > Hi, I don’t consider it a bug, but why is the ./bbmap/resources/ directory from the original source not included in the package? I’m guessing it is to reduce the package size. -Aaron
> 
> For sure it should be considered a bug in a package if a user is missing
> some features that are provided by the software.  This was topic of bug
> #995406[1] which was closed in bbmap 38.94+dfsg-1 and which should not
> occure any more in any later version including the version in Debian
> stable[2].
> 
> If you have continuous trouble please use
> 
>    sudo apt install reportbug
>    reportbug bbmap
> 
> to give us full version information that is probably needed to
> understand the issue.
> 
> Moreover some command line which leads to some error we could reproduce
> would be helpful.
> 
> Kind regards
>     Andreas.
> 
> 
> [1] https://gcc02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbugs.debian.org%2F995406&data=05%7C02%7Caaron.dickey%40usda.gov%7C58b123ce4123448fb9b508dc1dc0c324%7Ced5b36e701ee4ebc867ee03cfa0d4697%7C1%7C0%7C638417960944661702%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=5pR9Nl4u5aXQs0%2BQdiEPxtYHVbc10OAg8GBQhK6%2FLis%3D&reserved=0<https://bugs.debian.org/995406>
> [2] https://gcc02.safelinks.protection.outlook.com/?url=https%3A%2F%2Ftracker.debian.org%2Fpkg%2Fbbmap&data=05%7C02%7Caaron.dickey%40usda.gov%7C58b123ce4123448fb9b508dc1dc0c324%7Ced5b36e701ee4ebc867ee03cfa0d4697%7C1%7C0%7C638417960944670193%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=NgO2mqxfFdcl%2BoWpY2TGmUSEqe7iAI%2FMLiaDc0v%2FUXQ%3D&reserved=0<https://tracker.debian.org/pkg/bbmap>
> 
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