Unable to name neurons catnat

[Marcel Sayre]

Hi everyone,

I'm trying to upload a group of neurons to our CATMAID instance, but I'm unable to name them. Using the catnat and natverse packages, here is the code and response (with PFN_B1 being a neuronlist w/ 11 neurons): 

```{r}

catmaid_upload_neurons(swc = PFN_B1, name = "PFN_B1", pid = 5, conn = server_auth, max.upload = 60)

```

Upload location: https://xxxxxxxxxx/catmaid/

Could not name new neuron 15960Annotations and names set to new skeleton: 15960

Could not name new neuron 15966Annotations and names set to new skeleton: 15966

Could not name new neuron 15972Annotations and names set to new skeleton: 15972

...etc

The upload works fine, but neurons are assigned new names. Any ideas as to what I may be doing wrong? 

Thanks!

Cheers,
Marcel

[Greg Jefferis]

Hi Marcel,

That catnat function wraps around.

catmaid::catmaid_rename_neuron

I suggest you try using that to rename one of your neurons like 15960 directly and see if things work. If not, I would suspect an API permissions issue. You may need to head over to the catmaid mailing list to sort that out.

All the best,

Greg.

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[Marcel Sayre]

Hey Greg,

Thanks for your input - I tried again on a single neuron using catmaid_rename_neuron and again had no luck: 

```{r}

catmaid_get_neuronnames(skids = 16091, pid = 5, conn = server_auth)

```

         16091 

"neuron 16092" 

```{r}

catmaid_rename_neuron(skids=16091, names="PFN", pid = 5, conn = server_auth)

```

Error in catmaid_fetch(path, include_headers = F, conn = conn, ...) : Internal Server Error (HTTP 500).

5. stop(http_condition(x, "error", task = task, call = call))

4. stop_for_status(req)

3. catmaid_fetch(path, include_headers = F, conn = conn, ...)

2. get_neuronid_for_skid(skids)

1. catmaid_rename_neuron(skids = 16091, names = "PFN", pid = 5, conn = server_auth)

You're probably right, I'll post this question to the CATMAID group to see if it's an API permission issue. Thanks!
Cheers,
Marcel