process requirement exceeds available CPUs #3
Description
`ERROR ~ Error executing process > 'NFCORE_QUANTMS:QUANTMS:FILE_PREPARATION:THERMORAWFILEPARSER (140521_MO_H710_TP2_2)'
Caused by:
Process requirement exceeds available CPUs -- req: 12; avail: 10
Command executed:
ThermoRawFileParser.sh -i=140521_MO_H710_TP2_2.raw -f=2 -o=./ 2>&1 | tee 140521_MO_H710_TP2_2_conversion.log
cat <<-END_VERSIONS > versions.yml
"NFCORE_QUANTMS:QUANTMS:FILE_PREPARATION:THERMORAWFILEPARSER":
ThermoRawFileParser: $(ThermoRawFileParser.sh --version)
END_VERSIONS
Command exit status:
Command output:
Waiting for dumping threads to resume
=================================================================
External Debugger Dump:
mono_gdb_render_native_backtraces not supported on this platform, unable to find gdb or lldb
=================================================================
Basic Fault Address Reporting
Memory around native instruction pointer (0x7fffffc607bb):0x7fffffc607ab d2 4c 89 ce bf 02 00 00 00 b8 0e 00 00 00 0f 05 .L..............
0x7fffffc607bb 48 8b 8c 24 08 01 00 00 64 48 33 0c 25 28 00 00 H..$....dH3.%(..
0x7fffffc607cb 00 44 89 c0 75 1d 48 81 c4 10 01 00 00 5b c3 66 .D..u.H......[.f
0x7fffffc607db 0f 1f 44 00 00 48 8b 15 89 36 18 00 f7 d8 64 89 ..D..H...6....d.
=================================================================
Managed Stacktrace:
at <unknown> <0xffffffff>
at System.Xml.XmlTextReaderImpl:ReadData <0x00783>
at System.Xml.XmlTextReaderImpl:InitStreamInput <0x00513>
at System.Xml.XmlTextReaderImpl:InitStreamInput <0x0005f>
at System.Xml.XmlTextReaderImpl:.ctor <0x000d3>
at System.Xml.XmlTextReaderImpl:.ctor <0x00087>
at System.Xml.XmlTextReader:.ctor <0x0006f>
at ConfigXmlTextReader:.ctor <0x00047>
at System.Configuration.Configuration:Load <0x00167>
at System.Configuration.Configuration:Init <0x0020b>
at System.Configuration.Configuration:.ctor <0x0018b>
at System.Configuration.Configuration:.ctor <0x00147>
at System.Configuration.InternalConfigurationFactory:Create <0x000a7>
at System.Configuration.ConfigurationManager:OpenExeConfigurationInternal <0x003fe>
at System.Configuration.ClientConfigurationSystem:get_Configuration <0x0006b>
at System.Configuration.ClientConfigurationSystem:System.Configuration.Internal.IInternalConfigSystem.GetSection <0x0003f>
at System.Configuration.ConfigurationManager:GetSection <0x0005d>
at System.Configuration.ConfigurationManager:get_AppSettings <0x0003b>
at log4net.Util.SystemInfo:GetAppSetting <0x00037>
at log4net.Util.SystemInfo:.cctor <0x000cf>
at System.Object:runtime_invoke_void <0x0009d>
at <unknown> <0xffffffff>
at log4net.Core.LoggerManager:GetVersionInfo <0x00143>
at log4net.Core.LoggerManager:.cctor <0x00107>
at System.Object:runtime_invoke_void <0x0009d>
at <unknown> <0xffffffff>
at log4net.LogManager:GetLogger <0x00043>
at log4net.LogManager:GetLogger <0x0005b>
at ThermoRawFileParser.MainClass:.cctor <0x00047>
at System.Object:runtime_invoke_void <0x0009d>
=================================================================
/usr/local/bin/ThermoRawFileParser.sh: line 3: 45 Aborted mono
Command error:
Waiting for dumping threads to resume
=================================================================
External Debugger Dump:
mono_gdb_render_native_backtraces not supported on this platform, unable to find gdb or lldb
=================================================================
Basic Fault Address Reporting
Memory around native instruction pointer (0x7fffffc607bb):0x7fffffc607ab d2 4c 89 ce bf 02 00 00 00 b8 0e 00 00 00 0f 05 .L..............
0x7fffffc607bb 48 8b 8c 24 08 01 00 00 64 48 33 0c 25 28 00 00 H..$....dH3.%(..
0x7fffffc607cb 00 44 89 c0 75 1d 48 81 c4 10 01 00 00 5b c3 66 .D..u.H......[.f
0x7fffffc607db 0f 1f 44 00 00 48 8b 15 89 36 18 00 f7 d8 64 89 ..D..H...6....d.
=================================================================
Managed Stacktrace:
at <unknown> <0xffffffff>
at System.Xml.XmlTextReaderImpl:ReadData <0x00783>
at System.Xml.XmlTextReaderImpl:InitStreamInput <0x00513>
at System.Xml.XmlTextReaderImpl:InitStreamInput <0x0005f>
at System.Xml.XmlTextReaderImpl:.ctor <0x000d3>
at System.Xml.XmlTextReaderImpl:.ctor <0x00087>
at System.Xml.XmlTextReader:.ctor <0x0006f>
at ConfigXmlTextReader:.ctor <0x00047>
at System.Configuration.Configuration:Load <0x00167>
at System.Configuration.Configuration:Init <0x0020b>
at System.Configuration.Configuration:.ctor <0x0018b>
at System.Configuration.Configuration:.ctor <0x00147>
at System.Configuration.InternalConfigurationFactory:Create <0x000a7>
at System.Configuration.ConfigurationManager:OpenExeConfigurationInternal <0x003fe>
at System.Configuration.ClientConfigurationSystem:get_Configuration <0x0006b>
at System.Configuration.ClientConfigurationSystem:System.Configuration.Internal.IInternalConfigSystem.GetSection <0x0003f>
at System.Configuration.ConfigurationManager:GetSection <0x0005d>
at System.Configuration.ConfigurationManager:get_AppSettings <0x0003b>
at log4net.Util.SystemInfo:GetAppSetting <0x00037>
at log4net.Util.SystemInfo:.cctor <0x000cf>
at System.Object:runtime_invoke_void <0x0009d>
at <unknown> <0xffffffff>
at log4net.Core.LoggerManager:GetVersionInfo <0x00143>
at log4net.Core.LoggerManager:.cctor <0x00107>
at System.Object:runtime_invoke_void <0x0009d>
at <unknown> <0xffffffff>
at log4net.LogManager:GetLogger <0x00043>
at log4net.LogManager:GetLogger <0x0005b>
at ThermoRawFileParser.MainClass:.cctor <0x00047>
at System.Object:runtime_invoke_void <0x0009d>
=================================================================
/usr/local/bin/ThermoRawFileParser.sh: line 3: 45 Aborted mono
Work dir:
/Users/kenrick/Library/CloudStorage/OneDrive-KTH/thanadol_lab1/work/80/d3d77e6c988d4d8097f57c76d3ed6b
Tip: when you have fixed the problem you can continue the execution adding the option -resume to the run command line
-- Check '.nextflow.log' file for details
`