Job ID = 5720347 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-15T14:49:20 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 ) 2020-04-15T14:49:20 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 ) 2020-04-15T14:53:05 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 ) 2020-04-15T14:54:17 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 ) 2020-04-15T15:01:06 fasterq-dump.2.9.6 sys: error unknown while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 49,428,249 reads read : 49,428,249 reads written : 49,428,249 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: 00:15:42 49428249 reads; of these: 49428249 (100.00%) were unpaired; of these: 321938 (0.65%) aligned 0 times 40772440 (82.49%) aligned exactly 1 time 8333871 (16.86%) aligned >1 times 99.35% overall alignment rate Time searching: 00:15:42 Overall time: 00:15:42 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] 9745159 / 49106311 = 0.1985 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 @ Thu, 16 Apr 2020 00:46:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.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 @ Thu, 16 Apr 2020 00:46:49: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:46:49: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:46:55: 1000000 INFO @ Thu, 16 Apr 2020 00:47:01: 2000000 INFO @ Thu, 16 Apr 2020 00:47:07: 3000000 INFO @ Thu, 16 Apr 2020 00:47:16: 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 @ Thu, 16 Apr 2020 00:47:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.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 @ Thu, 16 Apr 2020 00:47:19: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:47:19: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:47:25: 5000000 INFO @ Thu, 16 Apr 2020 00:47:28: 1000000 INFO @ Thu, 16 Apr 2020 00:47:34: 6000000 INFO @ Thu, 16 Apr 2020 00:47:36: 2000000 INFO @ Thu, 16 Apr 2020 00:47:43: 7000000 INFO @ Thu, 16 Apr 2020 00:47:45: 3000000 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 @ Thu, 16 Apr 2020 00:47:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.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 @ Thu, 16 Apr 2020 00:47:49: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:47:49: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:47:51: 8000000 INFO @ Thu, 16 Apr 2020 00:47:54: 4000000 INFO @ Thu, 16 Apr 2020 00:47:57: 1000000 INFO @ Thu, 16 Apr 2020 00:48:01: 9000000 INFO @ Thu, 16 Apr 2020 00:48:03: 5000000 INFO @ Thu, 16 Apr 2020 00:48:06: 2000000 INFO @ Thu, 16 Apr 2020 00:48:09: 10000000 INFO @ Thu, 16 Apr 2020 00:48:12: 6000000 INFO @ Thu, 16 Apr 2020 00:48:14: 3000000 INFO @ Thu, 16 Apr 2020 00:48:19: 11000000 INFO @ Thu, 16 Apr 2020 00:48:20: 7000000 INFO @ Thu, 16 Apr 2020 00:48:24: 4000000 INFO @ Thu, 16 Apr 2020 00:48:28: 12000000 INFO @ Thu, 16 Apr 2020 00:48:30: 8000000 INFO @ Thu, 16 Apr 2020 00:48:34: 5000000 INFO @ Thu, 16 Apr 2020 00:48:36: 13000000 INFO @ Thu, 16 Apr 2020 00:48:39: 9000000 INFO @ Thu, 16 Apr 2020 00:48:42: 6000000 INFO @ Thu, 16 Apr 2020 00:48:44: 14000000 INFO @ Thu, 16 Apr 2020 00:48:47: 10000000 INFO @ Thu, 16 Apr 2020 00:48:50: 7000000 INFO @ Thu, 16 Apr 2020 00:48:52: 15000000 INFO @ Thu, 16 Apr 2020 00:48:55: 11000000 INFO @ Thu, 16 Apr 2020 00:48:59: 8000000 INFO @ Thu, 16 Apr 2020 00:49:01: 16000000 INFO @ Thu, 16 Apr 2020 00:49:04: 12000000 INFO @ Thu, 16 Apr 2020 00:49:07: 9000000 INFO @ Thu, 16 Apr 2020 00:49:11: 17000000 INFO @ Thu, 16 Apr 2020 00:49:14: 13000000 INFO @ Thu, 16 Apr 2020 00:49:16: 10000000 INFO @ Thu, 16 Apr 2020 00:49:20: 18000000 INFO @ Thu, 16 Apr 2020 00:49:23: 14000000 INFO @ Thu, 16 Apr 2020 00:49:24: 11000000 INFO @ Thu, 16 Apr 2020 00:49:29: 19000000 INFO @ Thu, 16 Apr 2020 00:49:31: 15000000 INFO @ Thu, 16 Apr 2020 00:49:32: 12000000 INFO @ Thu, 16 Apr 2020 00:49:37: 20000000 INFO @ Thu, 16 Apr 2020 00:49:39: 16000000 INFO @ Thu, 16 Apr 2020 00:49:39: 13000000 INFO @ Thu, 16 Apr 2020 00:49:44: 21000000 INFO @ Thu, 16 Apr 2020 00:49:46: 17000000 INFO @ Thu, 16 Apr 2020 00:49:47: 14000000 INFO @ Thu, 16 Apr 2020 00:49:51: 22000000 INFO @ Thu, 16 Apr 2020 00:49:54: 18000000 INFO @ Thu, 16 Apr 2020 00:49:54: 15000000 INFO @ Thu, 16 Apr 2020 00:49:59: 23000000 INFO @ Thu, 16 Apr 2020 00:50:01: 19000000 INFO @ Thu, 16 Apr 2020 00:50:02: 16000000 INFO @ Thu, 16 Apr 2020 00:50:06: 24000000 INFO @ Thu, 16 Apr 2020 00:50:09: 20000000 INFO @ Thu, 16 Apr 2020 00:50:10: 17000000 INFO @ Thu, 16 Apr 2020 00:50:13: 25000000 INFO @ Thu, 16 Apr 2020 00:50:16: 21000000 INFO @ Thu, 16 Apr 2020 00:50:17: 18000000 INFO @ Thu, 16 Apr 2020 00:50:21: 26000000 INFO @ Thu, 16 Apr 2020 00:50:24: 22000000 INFO @ Thu, 16 Apr 2020 00:50:25: 19000000 INFO @ Thu, 16 Apr 2020 00:50:28: 27000000 INFO @ Thu, 16 Apr 2020 00:50:31: 23000000 INFO @ Thu, 16 Apr 2020 00:50:32: 20000000 INFO @ Thu, 16 Apr 2020 00:50:35: 28000000 INFO @ Thu, 16 Apr 2020 00:50:38: 24000000 INFO @ Thu, 16 Apr 2020 00:50:39: 21000000 INFO @ Thu, 16 Apr 2020 00:50:42: 29000000 INFO @ Thu, 16 Apr 2020 00:50:46: 25000000 INFO @ Thu, 16 Apr 2020 00:50:47: 22000000 INFO @ Thu, 16 Apr 2020 00:50:50: 30000000 INFO @ Thu, 16 Apr 2020 00:50:53: 26000000 INFO @ Thu, 16 Apr 2020 00:50:54: 23000000 INFO @ Thu, 16 Apr 2020 00:50:57: 31000000 INFO @ Thu, 16 Apr 2020 00:51:00: 27000000 INFO @ Thu, 16 Apr 2020 00:51:02: 24000000 INFO @ Thu, 16 Apr 2020 00:51:04: 32000000 INFO @ Thu, 16 Apr 2020 00:51:08: 28000000 INFO @ Thu, 16 Apr 2020 00:51:09: 25000000 INFO @ Thu, 16 Apr 2020 00:51:12: 33000000 INFO @ Thu, 16 Apr 2020 00:51:15: 29000000 INFO @ Thu, 16 Apr 2020 00:51:16: 26000000 INFO @ Thu, 16 Apr 2020 00:51:19: 34000000 INFO @ Thu, 16 Apr 2020 00:51:22: 30000000 INFO @ Thu, 16 Apr 2020 00:51:23: 27000000 INFO @ Thu, 16 Apr 2020 00:51:27: 35000000 INFO @ Thu, 16 Apr 2020 00:51:29: 31000000 INFO @ Thu, 16 Apr 2020 00:51:31: 28000000 INFO @ Thu, 16 Apr 2020 00:51:33: 36000000 INFO @ Thu, 16 Apr 2020 00:51:37: 32000000 INFO @ Thu, 16 Apr 2020 00:51:38: 29000000 INFO @ Thu, 16 Apr 2020 00:51:40: 37000000 INFO @ Thu, 16 Apr 2020 00:51:44: 33000000 INFO @ Thu, 16 Apr 2020 00:51:45: 30000000 INFO @ Thu, 16 Apr 2020 00:51:47: 38000000 INFO @ Thu, 16 Apr 2020 00:51:51: 34000000 INFO @ Thu, 16 Apr 2020 00:51:52: 31000000 INFO @ Thu, 16 Apr 2020 00:51:53: 39000000 INFO @ Thu, 16 Apr 2020 00:51:56: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 00:51:56: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 00:51:56: #1 total tags in treatment: 39361152 INFO @ Thu, 16 Apr 2020 00:51:56: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:51:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:51:57: #1 tags after filtering in treatment: 39361152 INFO @ Thu, 16 Apr 2020 00:51:57: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 00:51:57: #1 finished! INFO @ Thu, 16 Apr 2020 00:51:57: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:51:57: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:51:59: 35000000 INFO @ Thu, 16 Apr 2020 00:51:59: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 00:51:59: 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 @ Thu, 16 Apr 2020 00:51:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.05_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/ce10/SRX7971808/SRX7971808.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 00:52:00: 32000000 INFO @ Thu, 16 Apr 2020 00:52:05: 36000000 INFO @ Thu, 16 Apr 2020 00:52:07: 33000000 INFO @ Thu, 16 Apr 2020 00:52:12: 37000000 INFO @ Thu, 16 Apr 2020 00:52:14: 34000000 INFO @ Thu, 16 Apr 2020 00:52:19: 38000000 INFO @ Thu, 16 Apr 2020 00:52:22: 35000000 INFO @ Thu, 16 Apr 2020 00:52:26: 39000000 INFO @ Thu, 16 Apr 2020 00:52:28: 36000000 INFO @ Thu, 16 Apr 2020 00:52:29: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 00:52:29: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 00:52:29: #1 total tags in treatment: 39361152 INFO @ Thu, 16 Apr 2020 00:52:29: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:52:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:52:30: #1 tags after filtering in treatment: 39361152 INFO @ Thu, 16 Apr 2020 00:52:30: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 00:52:30: #1 finished! INFO @ Thu, 16 Apr 2020 00:52:30: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:52:30: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:52:32: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 00:52:32: 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 @ Thu, 16 Apr 2020 00:52:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.10_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/SRX7971808/SRX7971808.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 00:52:34: 37000000 INFO @ Thu, 16 Apr 2020 00:52:41: 38000000 INFO @ Thu, 16 Apr 2020 00:52:48: 39000000 INFO @ Thu, 16 Apr 2020 00:52:51: #1 tag size is determined as 76 bps INFO @ Thu, 16 Apr 2020 00:52:51: #1 tag size = 76 INFO @ Thu, 16 Apr 2020 00:52:51: #1 total tags in treatment: 39361152 INFO @ Thu, 16 Apr 2020 00:52:51: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 00:52:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 00:52:51: #1 tags after filtering in treatment: 39361152 INFO @ Thu, 16 Apr 2020 00:52:51: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 00:52:51: #1 finished! INFO @ Thu, 16 Apr 2020 00:52:51: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 00:52:51: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 00:52:54: #2 number of paired peaks: 0 WARNING @ Thu, 16 Apr 2020 00:52:54: 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 @ Thu, 16 Apr 2020 00:52:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.20_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/SRX7971808/SRX7971808.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX7971808/SRX7971808.20_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。