Job ID = 5791881 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-22T02:02:47 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 : 16,928,861 reads read : 16,928,861 reads written : 16,928,861 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: 00:02:02 16928861 reads; of these: 16928861 (100.00%) were unpaired; of these: 291773 (1.72%) aligned 0 times 14328866 (84.64%) aligned exactly 1 time 2308222 (13.63%) aligned >1 times 98.28% 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] 5667168 / 16637088 = 0.3406 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 11:17:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.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 11:17:08: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:17:08: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:17:14: 1000000 INFO @ Wed, 22 Apr 2020 11:17:19: 2000000 INFO @ Wed, 22 Apr 2020 11:17:25: 3000000 INFO @ Wed, 22 Apr 2020 11:17:30: 4000000 INFO @ Wed, 22 Apr 2020 11:17:36: 5000000 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 11:17:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.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 11:17:38: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:17:38: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:17:42: 6000000 INFO @ Wed, 22 Apr 2020 11:17:44: 1000000 INFO @ Wed, 22 Apr 2020 11:17:47: 7000000 INFO @ Wed, 22 Apr 2020 11:17:50: 2000000 INFO @ Wed, 22 Apr 2020 11:17:53: 8000000 INFO @ Wed, 22 Apr 2020 11:17:56: 3000000 INFO @ Wed, 22 Apr 2020 11:17:59: 9000000 INFO @ Wed, 22 Apr 2020 11:18:02: 4000000 INFO @ Wed, 22 Apr 2020 11:18:05: 10000000 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 11:18:08: 5000000 INFO @ Wed, 22 Apr 2020 11:18:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.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 11:18:08: #1 read tag files... INFO @ Wed, 22 Apr 2020 11:18:08: #1 read treatment tags... INFO @ Wed, 22 Apr 2020 11:18:10: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:18:10: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:18:10: #1 total tags in treatment: 10969920 INFO @ Wed, 22 Apr 2020 11:18:10: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:18:10: #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 11:18:10: #1 tags after filtering in treatment: 10969920 INFO @ Wed, 22 Apr 2020 11:18:10: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 11:18:10: #1 finished! INFO @ Wed, 22 Apr 2020 11:18:10: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:18:10: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:18:11: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:18:11: 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 11:18:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.05_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/SRX7897108/SRX7897108.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:18:14: 6000000 INFO @ Wed, 22 Apr 2020 11:18:14: 1000000 INFO @ Wed, 22 Apr 2020 11:18:19: 2000000 INFO @ Wed, 22 Apr 2020 11:18:19: 7000000 INFO @ Wed, 22 Apr 2020 11:18:24: 3000000 INFO @ Wed, 22 Apr 2020 11:18:25: 8000000 INFO @ Wed, 22 Apr 2020 11:18:29: 4000000 INFO @ Wed, 22 Apr 2020 11:18:31: 9000000 INFO @ Wed, 22 Apr 2020 11:18:34: 5000000 INFO @ Wed, 22 Apr 2020 11:18:37: 10000000 INFO @ Wed, 22 Apr 2020 11:18:39: 6000000 INFO @ Wed, 22 Apr 2020 11:18:42: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:18:42: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:18:42: #1 total tags in treatment: 10969920 INFO @ Wed, 22 Apr 2020 11:18:42: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:18:42: #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 11:18:42: #1 tags after filtering in treatment: 10969920 INFO @ Wed, 22 Apr 2020 11:18:42: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 11:18:42: #1 finished! INFO @ Wed, 22 Apr 2020 11:18:42: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:18:42: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:18:43: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:18:43: 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 11:18:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.10_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/SRX7897108/SRX7897108.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Apr 2020 11:18:44: 7000000 INFO @ Wed, 22 Apr 2020 11:18:49: 8000000 INFO @ Wed, 22 Apr 2020 11:18:54: 9000000 INFO @ Wed, 22 Apr 2020 11:18:58: 10000000 INFO @ Wed, 22 Apr 2020 11:19:03: #1 tag size is determined as 50 bps INFO @ Wed, 22 Apr 2020 11:19:03: #1 tag size = 50 INFO @ Wed, 22 Apr 2020 11:19:03: #1 total tags in treatment: 10969920 INFO @ Wed, 22 Apr 2020 11:19:03: #1 user defined the maximum tags... INFO @ Wed, 22 Apr 2020 11:19:03: #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 11:19:03: #1 tags after filtering in treatment: 10969920 INFO @ Wed, 22 Apr 2020 11:19:03: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 22 Apr 2020 11:19:03: #1 finished! INFO @ Wed, 22 Apr 2020 11:19:03: #2 Build Peak Model... INFO @ Wed, 22 Apr 2020 11:19:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Apr 2020 11:19:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Apr 2020 11:19:04: 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 11:19:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.20_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/SRX7897108/SRX7897108.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7897108/SRX7897108.20_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。