Job ID = 5720146 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 21,000,911 reads read : 42,001,822 reads written : 21,000,911 reads 0-length : 21,000,911 2020-04-15T12:22:33 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 ) 2020-04-15T12:29:29 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 ) 2020-04-15T12:30:00 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 ) 2020-04-15T12:30:00 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 ) 2020-04-15T12:30:00 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 ) 2020-04-15T12:30:00 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 : 57,656,304 reads read : 115,312,608 reads written : 57,656,304 reads 0-length : 57,656,304 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: 00:18:32 78657215 reads; of these: 78657215 (100.00%) were unpaired; of these: 22872194 (29.08%) aligned 0 times 41449813 (52.70%) aligned exactly 1 time 14335208 (18.22%) aligned >1 times 70.92% overall alignment rate Time searching: 00:18:32 Overall time: 00:18:32 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 24 files... [bam_rmdupse_core] 20882981 / 55785021 = 0.3743 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, 15 Apr 2020 22:20:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.bam'] # control file = None # effective genome size = 9.00e+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, 15 Apr 2020 22:20:43: #1 read tag files... INFO @ Wed, 15 Apr 2020 22:20:43: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 22:20:48: 1000000 INFO @ Wed, 15 Apr 2020 22:20:53: 2000000 INFO @ Wed, 15 Apr 2020 22:20:59: 3000000 INFO @ Wed, 15 Apr 2020 22:21:04: 4000000 INFO @ Wed, 15 Apr 2020 22:21:09: 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, 15 Apr 2020 22:21:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.bam'] # control file = None # effective genome size = 9.00e+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, 15 Apr 2020 22:21:12: #1 read tag files... INFO @ Wed, 15 Apr 2020 22:21:12: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 22:21:14: 6000000 INFO @ Wed, 15 Apr 2020 22:21:18: 1000000 INFO @ Wed, 15 Apr 2020 22:21:20: 7000000 INFO @ Wed, 15 Apr 2020 22:21:24: 2000000 INFO @ Wed, 15 Apr 2020 22:21:26: 8000000 INFO @ Wed, 15 Apr 2020 22:21:30: 3000000 INFO @ Wed, 15 Apr 2020 22:21:32: 9000000 INFO @ Wed, 15 Apr 2020 22:21:36: 4000000 INFO @ Wed, 15 Apr 2020 22:21:38: 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, 15 Apr 2020 22:21:42: 5000000 INFO @ Wed, 15 Apr 2020 22:21:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.bam'] # control file = None # effective genome size = 9.00e+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, 15 Apr 2020 22:21:42: #1 read tag files... INFO @ Wed, 15 Apr 2020 22:21:42: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 22:21:43: 11000000 INFO @ Wed, 15 Apr 2020 22:21:48: 6000000 INFO @ Wed, 15 Apr 2020 22:21:48: 1000000 INFO @ Wed, 15 Apr 2020 22:21:49: 12000000 INFO @ Wed, 15 Apr 2020 22:21:54: 7000000 INFO @ Wed, 15 Apr 2020 22:21:54: 2000000 INFO @ Wed, 15 Apr 2020 22:21:55: 13000000 INFO @ Wed, 15 Apr 2020 22:22:00: 8000000 INFO @ Wed, 15 Apr 2020 22:22:00: 3000000 INFO @ Wed, 15 Apr 2020 22:22:01: 14000000 INFO @ Wed, 15 Apr 2020 22:22:06: 9000000 INFO @ Wed, 15 Apr 2020 22:22:06: 4000000 INFO @ Wed, 15 Apr 2020 22:22:06: 15000000 INFO @ Wed, 15 Apr 2020 22:22:11: 10000000 INFO @ Wed, 15 Apr 2020 22:22:12: 5000000 INFO @ Wed, 15 Apr 2020 22:22:12: 16000000 INFO @ Wed, 15 Apr 2020 22:22:17: 11000000 INFO @ Wed, 15 Apr 2020 22:22:18: 6000000 INFO @ Wed, 15 Apr 2020 22:22:18: 17000000 INFO @ Wed, 15 Apr 2020 22:22:23: 12000000 INFO @ Wed, 15 Apr 2020 22:22:23: 18000000 INFO @ Wed, 15 Apr 2020 22:22:23: 7000000 INFO @ Wed, 15 Apr 2020 22:22:28: 13000000 INFO @ Wed, 15 Apr 2020 22:22:29: 19000000 INFO @ Wed, 15 Apr 2020 22:22:29: 8000000 INFO @ Wed, 15 Apr 2020 22:22:34: 14000000 INFO @ Wed, 15 Apr 2020 22:22:34: 20000000 INFO @ Wed, 15 Apr 2020 22:22:35: 9000000 INFO @ Wed, 15 Apr 2020 22:22:40: 15000000 INFO @ Wed, 15 Apr 2020 22:22:40: 21000000 INFO @ Wed, 15 Apr 2020 22:22:41: 10000000 INFO @ Wed, 15 Apr 2020 22:22:45: 16000000 INFO @ Wed, 15 Apr 2020 22:22:46: 22000000 INFO @ Wed, 15 Apr 2020 22:22:46: 11000000 INFO @ Wed, 15 Apr 2020 22:22:51: 17000000 INFO @ Wed, 15 Apr 2020 22:22:51: 23000000 INFO @ Wed, 15 Apr 2020 22:22:52: 12000000 INFO @ Wed, 15 Apr 2020 22:22:57: 18000000 INFO @ Wed, 15 Apr 2020 22:22:57: 24000000 INFO @ Wed, 15 Apr 2020 22:22:57: 13000000 INFO @ Wed, 15 Apr 2020 22:23:02: 19000000 INFO @ Wed, 15 Apr 2020 22:23:03: 25000000 INFO @ Wed, 15 Apr 2020 22:23:03: 14000000 INFO @ Wed, 15 Apr 2020 22:23:08: 20000000 INFO @ Wed, 15 Apr 2020 22:23:08: 26000000 INFO @ Wed, 15 Apr 2020 22:23:09: 15000000 INFO @ Wed, 15 Apr 2020 22:23:14: 21000000 INFO @ Wed, 15 Apr 2020 22:23:14: 27000000 INFO @ Wed, 15 Apr 2020 22:23:14: 16000000 INFO @ Wed, 15 Apr 2020 22:23:19: 22000000 INFO @ Wed, 15 Apr 2020 22:23:20: 28000000 INFO @ Wed, 15 Apr 2020 22:23:20: 17000000 INFO @ Wed, 15 Apr 2020 22:23:25: 23000000 INFO @ Wed, 15 Apr 2020 22:23:25: 29000000 INFO @ Wed, 15 Apr 2020 22:23:25: 18000000 INFO @ Wed, 15 Apr 2020 22:23:31: 24000000 INFO @ Wed, 15 Apr 2020 22:23:31: 30000000 INFO @ Wed, 15 Apr 2020 22:23:31: 19000000 INFO @ Wed, 15 Apr 2020 22:23:36: 31000000 INFO @ Wed, 15 Apr 2020 22:23:36: 25000000 INFO @ Wed, 15 Apr 2020 22:23:37: 20000000 INFO @ Wed, 15 Apr 2020 22:23:42: 32000000 INFO @ Wed, 15 Apr 2020 22:23:42: 26000000 INFO @ Wed, 15 Apr 2020 22:23:42: 21000000 INFO @ Wed, 15 Apr 2020 22:23:47: 33000000 INFO @ Wed, 15 Apr 2020 22:23:47: 27000000 INFO @ Wed, 15 Apr 2020 22:23:48: 22000000 INFO @ Wed, 15 Apr 2020 22:23:53: 34000000 INFO @ Wed, 15 Apr 2020 22:23:53: 28000000 INFO @ Wed, 15 Apr 2020 22:23:53: 23000000 INFO @ Wed, 15 Apr 2020 22:23:58: #1 tag size is determined as 55 bps INFO @ Wed, 15 Apr 2020 22:23:58: #1 tag size = 55 INFO @ Wed, 15 Apr 2020 22:23:58: #1 total tags in treatment: 34902040 INFO @ Wed, 15 Apr 2020 22:23:58: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 22:23:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 15 Apr 2020 22:23:58: 29000000 INFO @ Wed, 15 Apr 2020 22:23:59: #1 tags after filtering in treatment: 34902040 INFO @ Wed, 15 Apr 2020 22:23:59: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 22:23:59: #1 finished! INFO @ Wed, 15 Apr 2020 22:23:59: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 22:23:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 22:23:59: 24000000 INFO @ Wed, 15 Apr 2020 22:24:01: #2 number of paired peaks: 20 WARNING @ Wed, 15 Apr 2020 22:24:01: Too few paired peaks (20) 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, 15 Apr 2020 22:24:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.05_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/ce10/SRX5702589/SRX5702589.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 15 Apr 2020 22:24:04: 30000000 INFO @ Wed, 15 Apr 2020 22:24:04: 25000000 INFO @ Wed, 15 Apr 2020 22:24:09: 31000000 INFO @ Wed, 15 Apr 2020 22:24:10: 26000000 INFO @ Wed, 15 Apr 2020 22:24:15: 32000000 INFO @ Wed, 15 Apr 2020 22:24:16: 27000000 INFO @ Wed, 15 Apr 2020 22:24:20: 33000000 INFO @ Wed, 15 Apr 2020 22:24:21: 28000000 INFO @ Wed, 15 Apr 2020 22:24:26: 34000000 INFO @ Wed, 15 Apr 2020 22:24:27: 29000000 INFO @ Wed, 15 Apr 2020 22:24:31: #1 tag size is determined as 55 bps INFO @ Wed, 15 Apr 2020 22:24:31: #1 tag size = 55 INFO @ Wed, 15 Apr 2020 22:24:31: #1 total tags in treatment: 34902040 INFO @ Wed, 15 Apr 2020 22:24:31: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 22:24:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 15 Apr 2020 22:24:32: #1 tags after filtering in treatment: 34902040 INFO @ Wed, 15 Apr 2020 22:24:32: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 22:24:32: #1 finished! INFO @ Wed, 15 Apr 2020 22:24:32: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 22:24:32: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 22:24:32: 30000000 INFO @ Wed, 15 Apr 2020 22:24:34: #2 number of paired peaks: 20 WARNING @ Wed, 15 Apr 2020 22:24:34: Too few paired peaks (20) 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, 15 Apr 2020 22:24:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.10_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/ce10/SRX5702589/SRX5702589.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 15 Apr 2020 22:24:37: 31000000 INFO @ Wed, 15 Apr 2020 22:24:43: 32000000 INFO @ Wed, 15 Apr 2020 22:24:48: 33000000 INFO @ Wed, 15 Apr 2020 22:24:53: 34000000 INFO @ Wed, 15 Apr 2020 22:24:59: #1 tag size is determined as 55 bps INFO @ Wed, 15 Apr 2020 22:24:59: #1 tag size = 55 INFO @ Wed, 15 Apr 2020 22:24:59: #1 total tags in treatment: 34902040 INFO @ Wed, 15 Apr 2020 22:24:59: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 22:24:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 15 Apr 2020 22:24:59: #1 tags after filtering in treatment: 34902040 INFO @ Wed, 15 Apr 2020 22:24:59: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 22:24:59: #1 finished! INFO @ Wed, 15 Apr 2020 22:24:59: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 22:24:59: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 22:25:01: #2 number of paired peaks: 20 WARNING @ Wed, 15 Apr 2020 22:25:01: Too few paired peaks (20) 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, 15 Apr 2020 22:25:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.20_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/ce10/SRX5702589/SRX5702589.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX5702589/SRX5702589.20_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。