Details
Description
Moving the mouse across a linked sequence shows a label. Normally the previously shown label is removed before a new one shown but not in 2.11.2.0-rc1:
Load examples/1GAQ.txt and view chain A in Chimera
Open java console, and Move mouse across sequence.
See output like below on console:
1GAQ
reading 690 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
690 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Time for creating model: 3 ms
>>> SIFTS File already downloaded for 1GAQ
Getting SIFTS mapping for 1GAQ|A: seq 1GAQ|A
INFO org.apache.http.impl.client.DefaultHttpClient - I/O exception (java.net.SocketException) caught when processing request: Broken pipe (Write failed)
INFO - I/O exception (java.net.SocketException) caught when processing request: Broken pipe (Write failed)
INFO org.apache.http.impl.client.DefaultHttpClient - Retrying request
INFO - Retrying request
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:28.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:28.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:23.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:23.A' failed: Connect to /127.0.0.1:58300 timed out
INFO org.apache.http.impl.client.DefaultHttpClient - I/O exception (java.net.SocketException) caught when processing request: Broken pipe (Write failed)
INFO - I/O exception (java.net.SocketException) caught when processing request: Broken pipe (Write failed)
INFO org.apache.http.impl.client.DefaultHttpClient - Retrying request
INFO - Retrying request
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:22.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:22.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call 'rlabel #0:29.A' failed: Connection reset by peer (connect failed)
ERROR - REST call 'rlabel #0:29.A' failed: Connection reset by peer (connect failed)
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:23.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:23.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call 'rlabel #0:27.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call 'rlabel #0:27.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:26.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:26.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:28.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:28.A' failed: Connect to /127.0.0.1:58300 timed out
Load examples/1GAQ.txt and view chain A in Chimera
Open java console, and Move mouse across sequence.
See output like below on console:
1GAQ
reading 690 atoms
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.
Default Van der Waals type for model set to Jmol
690 atoms created
ModelSet: autobonding; use autobond=false to not generate bonds automatically
Time for creating model: 3 ms
>>> SIFTS File already downloaded for 1GAQ
Getting SIFTS mapping for 1GAQ|A: seq 1GAQ|A
INFO org.apache.http.impl.client.DefaultHttpClient - I/O exception (java.net.SocketException) caught when processing request: Broken pipe (Write failed)
INFO - I/O exception (java.net.SocketException) caught when processing request: Broken pipe (Write failed)
INFO org.apache.http.impl.client.DefaultHttpClient - Retrying request
INFO - Retrying request
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:28.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:28.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:23.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:23.A' failed: Connect to /127.0.0.1:58300 timed out
INFO org.apache.http.impl.client.DefaultHttpClient - I/O exception (java.net.SocketException) caught when processing request: Broken pipe (Write failed)
INFO - I/O exception (java.net.SocketException) caught when processing request: Broken pipe (Write failed)
INFO org.apache.http.impl.client.DefaultHttpClient - Retrying request
INFO - Retrying request
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:22.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:22.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call 'rlabel #0:29.A' failed: Connection reset by peer (connect failed)
ERROR - REST call 'rlabel #0:29.A' failed: Connection reset by peer (connect failed)
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:23.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:23.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call 'rlabel #0:27.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call 'rlabel #0:27.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:26.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:26.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR ext.edu.ucsf.rbvi.strucviz2.ChimeraManager - REST call '~rlabel #0:28.A' failed: Connect to /127.0.0.1:58300 timed out
ERROR - REST call '~rlabel #0:28.A' failed: Connect to /127.0.0.1:58300 timed out