Export Annotation as Label Image - crash

[TDH21]

Hi, I'm very excited about the possibility of using TagLab. I have set up a project, annotated the corals and exported the data. When I export the annotation as a label image the software crashes. Any suggestions on how to fix this?
Thanks

[maxcorsini]

Please, give us more information so that we can reproduce the error. You have set a working area ? You are using a custom dictionary ? What is the exact error message that you get ?

You are welcome.

[TDH21]

Hi Max I'd like to introduce myself as it is likely I will have further questions for you. My name is Tim Harriden and I work as a marine biologist. A lot of my work is monitoring for impacts on coral reefs. I can see the potential of using TagLabs for this work and I'm very interested.
To provide more information on the software crashing during the export of the label image, I have attached a short screen grab. I haven't changed the dictionary. I don't have any coding experience or experience using python.
Also, I have been following the instructions on the TagLabs website under 'Docs'. Do you have any other documents that describe how to use TagLabs?
Appreciate your time answering my questions.
Cheers, Tim

taglab.720.mov

[maxcorsini]

It isn't easy to understand what happened. So please, send us your project so that we can take a look inside and solve the problem.

[TDH21]

I can't send the .json file here so I have sent it to massimiliano.corsini@isti.cnr.it
Is that the right file to send?

[gaiapavoni]

Dear Tim,

it looks like you are using an old version of TagLab, could you please run update.py and try again?

[TDH21]

Dear Gaia
Thanks for your reply. I have run the update but I think there might be an error - see below. I have been using TAGLAB 0.6.

zsh: command not found: update.py
timharriden@MacBook-Pro-3 TagLab-main % python3 update.py
Raw link: https://raw.githubusercontent.com/cnr-isti-vclab/TagLab/main/TAGLAB_VERSION
Traceback (most recent call last):
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/urllib/request.py", line 1318, in do_open
encode_chunked=req.has_header('Transfer-encoding'))
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/http/client.py", line 1239, in request
self._send_request(method, url, body, headers, encode_chunked)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/http/client.py", line 1285, in _send_request
self.endheaders(body, encode_chunked=encode_chunked)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/http/client.py", line 1234, in endheaders
self._send_output(message_body, encode_chunked=encode_chunked)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/http/client.py", line 1026, in _send_output
self.send(msg)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/http/client.py", line 964, in send
self.connect()
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/http/client.py", line 1400, in connect
server_hostname=server_hostname)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/ssl.py", line 407, in wrap_socket
_context=self, _session=session)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/ssl.py", line 817, in init
self.do_handshake()
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/ssl.py", line 1077, in do_handshake
self._sslobj.do_handshake()
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/ssl.py", line 689, in do_handshake
self._sslobj.do_handshake()
ssl.SSLError: [SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed (_ssl.c:852)

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File "update.py", line 30, in
f_online_version = urllib.request.urlopen(raw_link)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/urllib/request.py", line 223, in urlopen
return opener.open(url, data, timeout)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/urllib/request.py", line 526, in open
response = self._open(req, data)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/urllib/request.py", line 544, in _open
'_open', req)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/urllib/request.py", line 504, in _call_chain
result = func(*args)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/urllib/request.py", line 1361, in https_open
context=self._context, check_hostname=self._check_hostname)
File "/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/urllib/request.py", line 1320, in do_open
raise URLError(err)
urllib.error.URLError: <urlopen error [SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed (_ssl.c:852)>
timharriden@MacBook-Pro-3 TagLab-main %

[alemuntoni]

Hi!
Python 3.6 on OSX has an issue with certificates, this link shows how to solve it.
However, generally speaking, python 3.6 reached its end of life in december, therefore I suggest to update python first. It is possible that this issue has been solved in recent versions of python.

[TDH21]

Hi
I have updated to Python 3.10.4 and still have the same problem. Do you have any other suggestions?
Thanks, Tim

[TDH21]

Thanks for the advice. I’ll update python and see if it works

…

On 28 Mar 2022, at 3:07 pm, Alessandro Muntoni ***@***.***> wrote: Hi! Python 3.6 on OSX has an issue with certificates, this link shows how to solve it <https://stackoverflow.com/a/42334357/5851101>. However, generally speaking, python 3.6 reached its end of life <https://endoflife.date/python> in december, therefore I suggest to update python first. It is possible that this issue has been solved in recent versions of python. — Reply to this email directly, view it on GitHub <#34 (reply in thread)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AYD2K4F3OVQD6HDNM6U5SKDVCFLDVANCNFSM5QFI5A6A>. You are receiving this because you authored the thread.