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anopheles-genomic-surveillance / anopheles-genomic-surveillance.github.io

Lecture notes for a course on genomic surveillance of malaria vectors, developed by PAMCA and MalariaGEN
https://anopheles-genomic-surveillance.github.io/
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W* - Training images moved from vo_agam_release to vo_agam_release_master_us_central1 #233

Open jonbrenas opened 2 months ago

jonbrenas commented 2 months ago

The links for all the images that are stored on gcs are broken due all of them having been moved from vo_agam_release to vo_agam_release_master_us_central1.

jonbrenas commented 2 months ago

@alimanfoo pointed out that the same is true for the reference genomes used by IGV.

The preferred solution seems to be to create a permanent (and authentication-less) folder on S3 containing these resources before the notebooks are updated to point at the correct locations.

ahernank commented 1 month ago

Thanks @jonbrenas! For the URLs, would it be okay to collect the ones that are broken for the workshops you are checking & paste in here? I can then send you new URLs for the images.

ahernank commented 1 month ago

Btw, this issue is due to the fact that authentication is now required for vo_agam_release. The other bucket is not relevant here. :)

jonbrenas commented 1 month ago

Btw, this issue is due to the fact that authentication is now required for vo_agam_release. The other bucket is not relevant here. :)

Yes, but all images have also been copied into the other bucket. They might not be needed there.

Thanks @jonbrenas! For the URLs, would it be okay to collect the ones that are broken for the workshops you are checking & paste in here? I can then send you new URLs for the images.

I would say, generally, all the pictures in https://storage.googleapis.com/vo_agam_release/reference/training-images/ but, more specifically:

W1M2:

W1M4:

W2M1:

W2M4:

W3M3:

W3M4:

W4M3:

W4M4:

W5M1 (despite the path for the first one):

W5M4 (thanks @KellyLBennett):

W6M3:

W7M1 (despite the paths):

W7M2:

ahernank commented 1 month ago

Yup, that's true. You are right that we should have a piece of work cleaning-up what we have on those buckets, when we finish moving the resources to S3.

Thanks for listing the URLs @jonbrenas - it is quite helpful to see them this way to try to clean-up the names a bit. Updated URLs below, please let me know if you find any issues with these:

W1M2:

W1M4:

W2M1:

W2M4:

W3M3:

W3M4:

W4M3:

W4M4:

W5 -- should be all sorted.

W6M3:

W7M1 (despite the paths):

W7M2:

jonbrenas commented 1 month ago

It is possible to figure it out from the references but I think it might help to have a list of PRs addressing this in order:

W1M1: No linked image W1M2: #247 (merged) W1M3: No linked image W1M4: #249 (merged)

W2M1: #250 W2M2: No linked image W2M3: No linked image W2M4: #252 (merged)

W3M1: No linked image W3M2: No linked image W3M3: #253 W3M4: #258 (merged)

W4M1: No linked image W4M2: No linked image W4M3: #256 W4M4: #257

W5M1: #239 (merged) W5M2: No linked image W5M3: No linked image W5M4: #244 (merged)

W6M1: No linked image W6M2: No linked image W6M3: #231 (merged) W6M4: No linked image

W7M1: #232 (merged) W7M2: #240 (merged) W7M3: No linked image W7M4: No linked image

W8M1: No linked image W8M2: No linked image W8M3: No linked image W8M4: No linked image