Job ID = 5791878 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-22T01:45:42 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 : 17,163,768 reads read : 17,163,768 reads written : 17,163,768 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: 00:00:01 Multiseed full-index search: 00:02:01 17163768 reads; of these: 17163768 (100.00%) were unpaired; of these: 3868795 (22.54%) aligned 0 times 10949553 (63.79%) aligned exactly 1 time 2345420 (13.66%) aligned >1 times 77.46% overall alignment rate Time searching: 00:02:02 Overall time: 00:02:02 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_sort_core] merging from 8 files... [bam_rmdupse_core] 4828599 / 13294973 = 0.3632 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 11:13:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.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 11:13:27: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:13:27: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:13:33: 1000000 INFO @ Wed, 22 Apr 2020 11:13:39: 2000000 INFO @ Wed, 22 Apr 2020 11:13:45: 3000000 INFO @ Wed, 22 Apr 2020 11:13:51: 4000000 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 11:13:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.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 11:13:57: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:13:57: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:13:58: 5000000 INFO @ Wed, 22 Apr 2020 11:14:03: 1000000 INFO @ Wed, 22 Apr 2020 11:14:04: 6000000 INFO @ Wed, 22 Apr 2020 11:14:09: 2000000 INFO @ Wed, 22 Apr 2020 11:14:10: 7000000 INFO @ Wed, 22 Apr 2020 11:14:14: 3000000 INFO @ Wed, 22 Apr 2020 11:14:17: 8000000 INFO @ Wed, 22 Apr 2020 11:14:20: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:14:20: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:14:20: #1 total tags in treatment: 8466374 INFO @ Wed, 22 Apr 2020 11:14:20: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:14:20: #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 11:14:20: #1 tags after filtering in treatment: 8466374 INFO @ Wed, 22 Apr 2020 11:14:20: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 11:14:20: #1 finished! INFO @ Wed, 22 Apr 2020 11:14:20: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:14:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:14:20: 4000000 INFO @ Wed, 22 Apr 2020 11:14:20: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:14:20: Too few paired peaks (0) 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 11:14:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.05_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/SRX7897107/SRX7897107.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.05_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 11:14:25: 5000000 INFO @ Wed, 22 Apr 2020 11:14:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.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 11:14:27: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:14:27: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:14:31: 6000000 INFO @ Wed, 22 Apr 2020 11:14:32: 1000000 INFO @ Wed, 22 Apr 2020 11:14:36: 7000000 INFO @ Wed, 22 Apr 2020 11:14:38: 2000000 INFO @ Wed, 22 Apr 2020 11:14:42: 8000000 INFO @ Wed, 22 Apr 2020 11:14:43: 3000000 INFO @ Wed, 22 Apr 2020 11:14:44: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:14:44: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:14:44: #1 total tags in treatment: 8466374 INFO @ Wed, 22 Apr 2020 11:14:44: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:14:44: #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 11:14:44: #1 tags after filtering in treatment: 8466374 INFO @ Wed, 22 Apr 2020 11:14:44: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 11:14:44: #1 finished! INFO @ Wed, 22 Apr 2020 11:14:44: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:14:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:14:45: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:14:45: Too few paired peaks (0) 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 11:14:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.10_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/SRX7897107/SRX7897107.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:14:48: 4000000 INFO @ Wed, 22 Apr 2020 11:14:53: 5000000 INFO @ Wed, 22 Apr 2020 11:14:59: 6000000 INFO @ Wed, 22 Apr 2020 11:15:04: 7000000 INFO @ Wed, 22 Apr 2020 11:15:09: 8000000 INFO @ Wed, 22 Apr 2020 11:15:11: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:15:11: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:15:11: #1 total tags in treatment: 8466374 INFO @ Wed, 22 Apr 2020 11:15:11: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:15:11: #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 11:15:11: #1 tags after filtering in treatment: 8466374 INFO @ Wed, 22 Apr 2020 11:15:11: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 11:15:11: #1 finished! INFO @ Wed, 22 Apr 2020 11:15:11: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:15:11: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:15:12: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:15:12: Too few paired peaks (0) 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 11:15:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.20_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/SRX7897107/SRX7897107.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897107/SRX7897107.20_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。