Customer support archive contents

alignment.log

The log of the final TMAP alignment process.

<RunName>_<AnalysisReportName>.alignment.summary

A text format summary of sample alignment final results .

alignment.summary

A text format summary of sample alignment final results (same as the file <RunName>_<AnalysisReportName>.alignment.summary, but with a predictable file name).

backupPDF.pdf

A PDF file of the analysis report and plugin results (similar to the output of the Download as PDF button on a run report).

Controller

The Live View log of user activity on the sequencing instrument.

debug

The log from data collect, the background data acquisition module.

DefaultTFs.conf

Contains a list of known test fragment sequences and their bases.

drmaa_stderr_block.txt

The analysis pipeline error log for the block being executed by Oracle™ Grid Engine.

drmaa_stdout.txt

The log of events after primary analysis.

drmaa_stdout_block.txt

The analysis pipeline output log for the block being executed by Oracle™ Grid Engine.

explog.txt

The initial run settings needed for Torrent Suite™ Software analysis when being exported from an instrument.

explog_final.txt

The final run settings needed for Torrent Suite™ Software analysis when being exported from an instrument.

InitLog.txt

The instrument auto pH log.

InitValsW2.txt

The pH log of the W2 solution.

InitValsW3.txt

The pH log of the W3 solution.

RawInit.txt

Contains initialization data output.

sysinfo.txt

Contains Torrent Suite™ Software system settings.

TF.alignment.summary

A summary of test fragment alignment results in a text file.

uploadStatus

The log of metrics being uploaded to the Torrent Suite™ Software.

version.txt

Lists the Torrent Suite™ Software versions used for the analysis report.

basecaller.log

A log file for the BaseCaller analysis module.

datasets_basecaller.json

A JSON-format file of the settings needed for the BaseCaller module to analyze the sample data.

datasets_pipeline.json

A JSON-format file of the settings needed by the pipeline to run the BaseCaller module.

datasets_tf.json

A JSON-format file of the settings needed for the BaseCaller module to analyze the Test Fragments.

<RunName>_<AnalysisReportName>.quality.summary

A quality summary of the BaseCaller module unaligned reads/bases after filtering and trimming.

quality.summary

Same as above, but with a predictable file name.

TFStats.json

A JSON-format file of test fragments results statistics.

alignment.log

A log of the TMAP alignment process during base recalibration.

alignmentQr_out.txt

A log file from the TMAP analysis module.

alignment.log

A log of the TMAP alignment process based on unfiltered and trimmed reads.

<RunName>_<AnalysisReportName>. alignment.summary

A text format summary of sample alignment results for unfiltered and trimmed reads.

alignment.summary

A text format summary of sample alignment results for unfiltered and trimmed reads(same as above, but with a predictable file name).

datasets_basecaller.json

A JSON-format file of the settings needed for the BaseCaller module to analyze the sample data, when generating the raw BAM file.

<RunName>_<AnalysisReportName>.quality.summary

The BaseCaller module unfiltered and trimmed reads/bases quality summary.

quality.summary

The BaseCaller module unfiltered and trimmed reads/bases quality summary (same as above, but with a predictable file name).

alignment.log

A log of the TMAP alignment process based on unfiltered and trimmed reads.

<RunName>_<AnalysisReportName>. alignment.summary

A text format summary of sample alignment results for unfiltered and untrimmed reads.

alignment.summary

A text format summary of sample alignment results for unfiltered and untrimmed reads (same as above, but with a predictable file name).

datasets_basecaller.json

A JSON-format file of the settings needed for the BaseCaller module to analyze the sample data, when generating the raw BAM file.

<RunName>_<AnalysisReportName>.quality.summary

The BaseCaller module unfiltered and untrimmed reads/bases quality summary.

quality.summary

The BaseCaller module unfiltered and untrimmed reads/bases quality summary (same as above, but with a predictable file name).

analysis.bfmask.stats

Contains analysis statistics of wells in the bead find stage (the bfmask is a set of bit flags for each well, indicating the contents of each well).

avgNukeTrace_ATCG.txt

Contains ATCG key signal measurements.

avgNukeTrace_TCAG.txt

Contains TCAG key signal measurements.

bfmask.stats

Contains summary statistics of wells in the bead find stage.

processParameters.txt

Contains parameter settings for analysis signal processing.

separator.bftraces.txt

Contains matrix data to separate between live wells and empty wells during bead find phase.

separator.trace.txt

Contains matrix data to separate between live wells and empty wells.

sigproc.log

A log file for the analysis module.

dcOffset.txt

The background model parameter values of dcOffset.

NucStep_frametime.txt

NucStep_inlet_head.txt

NucStep_inlet_empty.txt

NucStep_inlet_empty_sd.txt

NucStep_inlet_step.txt

NucStep_middle_head.txt

NucStep_ middle_empty.txt

NucStep_ middle_empty_sd.txt

NucStep_ middle_step.txt

NucStep_outlet_head.txt

NucStep_ outlet_empty.txt

NucStep_outlet_empty_sd.txt

NucStep_outlet_step.txt