Hello,
In the middle of downloading a file, I get the message "Breaking lock whose age is: 434.714201927"
The download doesn't stop, but get stucked.
What does this message mean?
How can I prevent it?
Created by Efrat Katsman ekushele Hello @ekushele,
Are you able to test downloading that synID from the web? That will help us diagnose whether there is something wrong with that file and/or your permissions to download the file, or whether it's a bug in the client that's causing you problems. Thank you!
Best,
Meredith It seem's like the problem appears only to some of the files.
When trying with another files, the download completed well.
Maybe it depends on the file size?
I don't know the file's size, since the column of fileSize in the data browser where the id==syn10027190 is "NA"/
I would like to add one thing:
Using the "ps -ux" command in command line, my processes of synapse is getting into D mode (uninteraptable) and I can't kill them:
USER PID %CPU %MEM VSZ RSS TTY STAT START TIME COMMAND
ekushele 19425 0.0 0.0 104216 2064 ? S 07:52 0:00 sshd: ekushele@pts/5
ekushele 19426 0.0 0.0 112728 2116 pts/5 Ss+ 07:52 0:00 -bash
ekushele 23038 0.0 0.0 104216 2064 ? S 08:02 0:00 sshd: ekushele@pts/9
ekushele 23039 0.0 0.0 112728 2120 pts/9 Ss 08:02 0:00 -bash
ekushele 25920 0.0 0.0 114488 1324 pts/9 R+ 08:09 0:00 ps -ux
ekushele 25921 0.0 0.0 105464 856 pts/9 S+ 08:09 0:00 less
ekushele 135765 0.0 0.0 247024 23504 ? D Dec18 0:00 /usr/bin/python2.7 /usr/bin/synapse -u ekushele -p EFRAT123 -s get --downloadLocation Data/DataSets/AML/BeatAML/ syn10027193
ekushele 138622 0.0 0.0 247020 23616 ? D Dec18 0:00 /usr/bin/python2.7 /usr/bin/synapse get --downloadLocation Data/DataSets/AML/BeatAML/ syn10027190
ekushele 152058 0.0 0.0 247068 23592 ? D Dec18 0:00 /usr/bin/python2.7 /usr/bin/synapse -u ekushele -p EFRAT123 get --downloadLocation Data/DataSets/AML/BeatAML2/ syn10027193
ekushele 155072 0.0 0.0 247016 11508 ? D Dec18 0:00 /usr/bin/python2.7 /usr/bin/synapse -u ekushele -p EFRAT123 get --downloadLocation Data/DataSets/AML/BeatAML2/ syn10027190
You can see I tried to run the command several times. Yes :)
There is no error, this message just stuck the computer for some hours...
The download doesn't complete.
I am trying with the shell (command line) and I tried once with python.
My synapse client is version 1.7.3
Until the day before yesterday everything worked perfectly well. I am iterating a loop of synapse_id that I need to download, and every iteration I'm calling the get command to download the current synapse_id file. I'm using the -u and -p flags (username and password).
But yesterday, something stopped working, and since then-even downloading without any flags doesn't work.
For example:
Python 2.7.15 (default, Aug 17 2018, 10:05:15)
[GCC 4.4.7 20120313 (Red Hat 4.4.7-23)] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>> import synapseclient
>>> syn=synapseclient.Synapse
>>>
>>> syn=synapseclient.Synapse()
>>> syn.login("ekushele","EFRAT123")
UPGRADE AVAILABLE
A more recent version of the Synapse Client (1.9.0) is available. Your version (1.7.3) can be upgraded by typing:
pip install --upgrade synapseclient
Python Synapse Client version 1.9.0 release notes
https://python-docs.synapse.org/build/html/news.html
Welcome, Efrat Katsman!
>>> e=syn.get("syn10027193" )
Breaking lock whose age is: 50687.997164
Killed
Hello @ekushele,
Can you give me a little bit more information about what happens with you get "stuck"? Is there an error? Is the download able to complete successfully (eventually) or is it incomplete? How are you trying to download this file (through the web, via an analytic client, etc.)? If you are using a client, which version? We have seen issues with cache locks in older clients.
Related discussion threads:
https://www.synapse.org/#!SynapseForum:threadId=572
https://www.synapse.org/#!Synapse:syn5637528/discussion/threadId=3314
Thank you!
-Meredith