0-5 Cerberus

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Sueann

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Aug 3, 2024, 4:09:51 PM8/3/24

to grunarcider

So i want to validate that the subdictionaries have a specific structure (foo and bar as keys), but I can't figure out a way to validate this without knowing the keys ahead of time (which in my case are random id's. I figured this was a good use of valueschema but i can't seem to get valueschema to work with something of type 'dict'. I tried to set the following schema in cerberus:

Am i defining my schema incorrectly or is this not possible with the current implementation of valueschema. I saw some tests in the repository that used valueschema, but they were only testing where the type of valueschema was an int or a string.

Now there's still some weirdness because it doesn't seem like valueschema was designed with the expectation that it would validate a value of type dict. For example when I extend from the validator, I had to override the validate_valueschema method so that the required validation acts the same as it would for a regular schema, because when it calls validate on the schema it doesn't pass in the update parameter. So my overridden validate_valueschema looks like this:

However, we also noticed that these cerberus tasks are created by the regular (every 5 min) ncc checks executed via cron (/var/spool/crontabs/nutanix) on the PC CVM. We disabled those checks for now and had no cerberus tasks running for some days now.

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Embryological and genetic evidence indicates that the vertebrate head is induced by a different set of signals from those that organize trunk-tail development. The gene cerberus encodes a secreted protein that is expressed in anterior endoderm and has the unique property of inducing ectopic heads in the absence of trunk structures. Here we show that the cerberus protein functions as a multivalent growth-factor antagonist in the extracellular space: it binds to Nodal, BMP and Wnt proteins via independent sites. The expression of cerberus during gastrulation is activated by earlier nodal-related signals in endoderm and by Spemann-organizer factors that repress signalling by BMP and Wnt. In order for the head territory to form, we propose that signals involved in trunk development, such as those involving BMP, Wnt and Nodal proteins, must be inhibited in rostral regions.

The login nodes, which should be used only for submitting jobs, file-transfers, software compilation, and simulation preparation are accessible as cerberus.arc.gwu.edu. Please Note: Running jobs on the login nodes is prohibited and may result in account suspension.

NOTE: To access Cerberus you must either be on the GW network or be connected to the GW VPN. For more information about the GW VPN for Windows and Mac users, please go to GWIT's site. If you are running Ubuntu see the video tutorial hereOpens in a new window and below for a walk-thru on installation and set-up of the VPN client.

To login to Cerberus using ssh requires authenticating with ssh keys. Once your account is set up, you can send your ssh key public key file to hpc...@gwu.edu and Raptor system admins will add it to your profile.

If you are off campus, you may need to connect to the GW VPN order to access Raptor. VPN software is available here for Windows and Mac users. Once connected, ssh to the cluster like you normally would.