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https://usegalaxy.eu status: https://stats.galaxyproject.eu Forum: https://help.galaxyproject.org

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Iqra Arshad

@IqraArs32222058_twitter

but now when I open previous files it shows 404 error

Praveen Kumar M

@praveenkumarpgiindia

Ok . then while importing the csv, header just becomes the first row.

Thanks

Iqra Arshad

@IqraArs32222058_twitter

i am unable to open files can any one tell me what should i do

Praveen Kumar M

@praveenkumarpgiindia

As you will be well aware, generally in R and python scripts we specify the header row at time of import. Hence the confusion

Simon Bray

@simonbray

@praveenkumarpgiindia, yes, the ML tools are based on scikit-learn and the header is dealt with when the tool is run

Hello @IqraArs32222058_twitter, we unfortunately lost some data last week, please see this blog post for more information: https://usegalaxy-eu.github.io/posts/2020/03/09/devops-storage-issues/plain.html

Simon Bray

@simonbray

You should rerun jobs and reupload data if necessary

We are really sorry for the inconvenience :(

Tomas

@TKlingstrom

Does Usegalaxy.eu see more traffic than usual? Just curious on if you can see people working from home and taking the opportunity to explore bioinformatics instead.

Björn Grüning

@bgruening

@TKlingstrom: https://covid19.galaxyproject.org/cheminformatics/

Gianmauro Cuccuru

@gmauro

Hi @TKlingstrom there are at least 2 covid19 projects running that are using more resources than usual

Björn Grüning

@bgruening

Good news is that we just got 2000 new cores, we just need to mount them in :)

Tomas

@TKlingstrom

We're going to have a home exam and I figured that I should avoid using up any resources used for better purposes. Will short jobs run okay? My plan is to have them do something basic like counting SNPs on an exome just to show they can use Galaxy.

Björn Grüning

@bgruening

they should run, yes

please try before

at least one of the bigger projects are done today evening

Tomas

@TKlingstrom

I tried now and it worked.

Also had to run off and get the kids from daycare, one of them coughed twice.

Tomas

@TKlingstrom

Swedish public services are kept open to avoid grandparents taking care of the kids but anyone showing even mild symptoms is sent home. Which seems to be working

Björn Grüning

@bgruening

top!

Praveen Kumar M

@praveenkumarpgiindia

From healthcare side, we are also getting ready in India. Our duties are scheduled to increase the screening rate. Good that two mega projects are running in Galaxy. A drug should turn out soon to stop the hell rolling out.

Simon Bray

@simonbray

https://help.galaxyproject.org/t/quast-warnings-and-errors/3205

llryab01

@llryab01

Simon Bray

@simonbray

maybe some chip-seq expert can have a look at this: https://help.galaxyproject.org/t/link-chip-seq-s-peaks-with-nearby-genes/3270

also this still needs an answer: https://help.galaxyproject.org/t/quast-warnings-and-errors/3205

Petr Novak

@kavonrtep

I have a problem on usegalaxy.eu (it did not happen on usegalaxy.org) - students are sharing with me their histories via public link but some datasets are not accessible - it look like the issue described in galaxyproject/galaxy#5894 . Example os such histories are : https://usegalaxy.eu/u/strycl00/h/tutorial (partially accessible), https://usegalaxy.eu/u/jachnn00/h/mapping (no persmission at all). https://usegalaxy.eu/u/miloslav_brejcha/h/mapping (fully accessible). Can this be fixed? Or is it problem with some settings? Based on the shared histories from ~10 students this problem is quite frequent but random.

Björn Grüning

@bgruening

@kavonrtep please make sure that your students do check the checkbox below the share-history link

I will make a screenshot

the checkbox is important to click before you share the history

Petr Novak

@kavonrtep

@bgruening ok, I understand, thanks. It is a kind of unfortunate that checkbox is visible only before making history public

Björn Grüning

@bgruening

True, we should track this upstream and fix it.

pvanheus

@pvanheus

ivar 1.2 is merged into tools-iuc - I know the usegalaxy.eu update runs on Saturdays... does this mean that usegalaxy.eu will now get 1.2 or did the update run already?

Björn Grüning

@bgruening

update run already, but I can trigger a new one for you if you need it urgently

pvanheus

@pvanheus

it can probably wait till the next update - this is only important for people using ARTIC v3 sequencing of SARS-CoV-2 - not sure how many are going that yet?

Björn Grüning

@bgruening

@pvanheus its installed

pvanheus

@pvanheus

thank you

Unlock-ViV

@Unlock-ViV

hello, Im looking for the 500 high scoring compounds screened for MPro protease enzyme. Which are available at https://covid19.galaxyproject.org/cheminformatics/Histories/ link.

Simon Bray

@simonbray

Hi @Unlock-ViV, have a look at this history: https://usegalaxy.eu/u/timdudgeon/h/top-500-enamine--chemspace-bb

you can download the SDF file here: https://usegalaxy.eu/datasets/11ac94870d0bb33abafec69123f0869b/display/

Unlock-ViV

@Unlock-ViV

okay i'll check

yeah its working .. thank youu soo much

is there is a way to check similar datasets against coronavirus by other groups,.

Björn Grüning

@bgruening

@Unlock-ViV you have a lot of tools in the ChemicaToolBox (cheminformatics.usegalaxy.eu), including fingerprint tools

so you can create fingerprints and match them with other sets

Unlock-ViV

@Unlock-ViV

okay thanks

Pavankumar Videm

@pavanvidem

Hi galaxy team, could somebody check if there is a fastq_paired_end_deinterlacer job running? My history shows that it's been running since Sunday evening. This is suspicious for my file size. Thanks!
Job API ID: 18e1e51cb89c75f1
History API ID: 6c40c2bb35f97984

Gianmauro Cuccuru

@gmauro

@pavanvidem yes is running

Pavankumar Videm

@pavanvidem

ok, then I will wait a bit. Thanks!