Gkno: Add-Resource Error

Question

[Viktor Ljungström]

Hi,

New day, new question.

When trying the command ./gkno add-resource human I get the following error message:

"Fetching current release for homo_sapiens:
  Downloading files... 113%
  Unpacking files...ERROR: Could not extract contents of/var/folders/l7/jryw_bhn6_vc2sgzrzykyn6h0000gn/T/tmp8zFT1h.gz"

I get the same error when trying locally on my mac (OSX 10.8.2) and on our cluster running Scientific Linux 6.

I looked into the targets.json-file in the resources/human-folder and it seems to point to "https://github.com/downloads/gkno/resources-homosapiens/build37.tar.gz". When I tried to sneak into this directory to download it myself it says "File was not found"which might or might not be a clue.

Anyone ideas if I'm doing something wrong or what's going on?

Best, Viktor

Answer 1

[Derek Barnett]

Hi Viktor, Derek here, from the gkno team. Looks like GitHub is taking away our ability to host resources in this manner: https://github.com/blog/1302-goodbye-uploads . This was news to me, just now found it while looking into your issue.

Doesn't solve your problem, but this is almost certainly what's going on. Thanks for the heads-up; we'll get started on shifting how we host resources.

• Derek

[Viktor Ljungström]

Ok! Then at least we have a probable explanation, always something :)

I'll keep an eye on the blog and this post to see what you come up with.

/Viktor

[Derek Barnett]

So, the resources have been migrated and are accessible once again.

Ideal situation: you'd be able type:

./gkno update (to get the new target URL)

./gkno add-resource human (to download the target)

and be good to go.

In reality: this process has uncovered a few bugs & limitations with the ./gkno update command under the hood, so that's not quite possible at this point.

You may be able to get away with running (in gkno_launcher top-level directory):

git pull

git submodule update --init --recursive

./gkno add-resource human

to get the updated target file and then fetch the human data, without having to rebuild all the tools.

If that doesn't work, you'll probably have to grab a fresh clone, build it, then run ./gkno add-resource human , and you should be all set.

[Viktor Ljungström]

Working!

git clone git://github.com/gkno/gkno_launcher.git has become my #1 command the last days when troubleshooting previous errors so i did a fresh build...

Thanks for quick response and fix!

Viktor