Job ID = 5791103 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-21T23:30:56 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-21T23:30:56 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 3,512,701 reads read : 7,025,402 reads written : 3,512,701 reads 0-length : 3,512,701 rm: cannot remove ‘[DSE]RR*’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:00:54 3512701 reads; of these: 3512701 (100.00%) were unpaired; of these: 304082 (8.66%) aligned 0 times 2825458 (80.44%) aligned exactly 1 time 383161 (10.91%) aligned >1 times 91.34% overall alignment rate Time searching: 00:00:54 Overall time: 00:00:54 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_rmdupse_core] 638182 / 3208619 = 0.1989 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 08:34:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Apr 2020 08:34:18: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:34:18: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:34:25: 1000000 INFO @ Wed, 22 Apr 2020 08:34:32: 2000000 INFO @ Wed, 22 Apr 2020 08:34:36: #1 tag size is determined as 100 bps INFO @ Wed, 22 Apr 2020 08:34:36: #1 tag size = 100 INFO @ Wed, 22 Apr 2020 08:34:36: #1 total tags in treatment: 2570437 INFO @ Wed, 22 Apr 2020 08:34:36: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:34:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:34:36: #1 tags after filtering in treatment: 2570437 INFO @ Wed, 22 Apr 2020 08:34:36: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 08:34:36: #1 finished! INFO @ Wed, 22 Apr 2020 08:34:36: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:34:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:34:36: #2 number of paired peaks: 58 WARNING @ Wed, 22 Apr 2020 08:34:36: Too few paired peaks (58) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Apr 2020 08:34:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 08:34:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Apr 2020 08:34:48: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:34:48: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:34:55: 1000000 INFO @ Wed, 22 Apr 2020 08:35:02: 2000000 INFO @ Wed, 22 Apr 2020 08:35:06: #1 tag size is determined as 100 bps INFO @ Wed, 22 Apr 2020 08:35:06: #1 tag size = 100 INFO @ Wed, 22 Apr 2020 08:35:06: #1 total tags in treatment: 2570437 INFO @ Wed, 22 Apr 2020 08:35:06: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:35:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:35:06: #1 tags after filtering in treatment: 2570437 INFO @ Wed, 22 Apr 2020 08:35:06: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 08:35:06: #1 finished! INFO @ Wed, 22 Apr 2020 08:35:06: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:35:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:35:06: #2 number of paired peaks: 58 WARNING @ Wed, 22 Apr 2020 08:35:06: Too few paired peaks (58) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Apr 2020 08:35:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 22 Apr 2020 08:35:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 22 Apr 2020 08:35:18: #1 read tag files... INFO @ Wed, 22 Apr 2020 08:35:18: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 08:35:25: 1000000 INFO @ Wed, 22 Apr 2020 08:35:32: 2000000 INFO @ Wed, 22 Apr 2020 08:35:36: #1 tag size is determined as 100 bps INFO @ Wed, 22 Apr 2020 08:35:36: #1 tag size = 100 INFO @ Wed, 22 Apr 2020 08:35:36: #1 total tags in treatment: 2570437 INFO @ Wed, 22 Apr 2020 08:35:36: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 08:35:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Apr 2020 08:35:36: #1 tags after filtering in treatment: 2570437 INFO @ Wed, 22 Apr 2020 08:35:36: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 08:35:36: #1 finished! INFO @ Wed, 22 Apr 2020 08:35:36: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 08:35:36: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 08:35:36: #2 number of paired peaks: 58 WARNING @ Wed, 22 Apr 2020 08:35:36: Too few paired peaks (58) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 22 Apr 2020 08:35:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5936171/SRX5936171.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。