Job ID = 5720222 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-15T12:39:29 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 ) 2020-04-15T12:39:29 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 ) spots read : 60,566,309 reads read : 121,132,618 reads written : 60,566,309 reads 0-length : 60,566,309 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: 00:12:48 60566309 reads; of these: 60566309 (100.00%) were unpaired; of these: 2548653 (4.21%) aligned 0 times 49308722 (81.41%) aligned exactly 1 time 8708934 (14.38%) aligned >1 times 95.79% overall alignment rate Time searching: 00:12:48 Overall time: 00:12:48 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] 15510506 / 58017656 = 0.2673 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 22:19:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.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 22:19:50: #1 read tag files... INFO @ Wed, 15 Apr 2020 22:19:50: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 22:19:57: 1000000 INFO @ Wed, 15 Apr 2020 22:20:03: 2000000 INFO @ Wed, 15 Apr 2020 22:20:09: 3000000 INFO @ Wed, 15 Apr 2020 22:20:15: 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, 15 Apr 2020 22:20:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.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 22:20:20: #1 read tag files... INFO @ Wed, 15 Apr 2020 22:20:20: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 22:20:20: 5000000 INFO @ Wed, 15 Apr 2020 22:20:26: 1000000 INFO @ Wed, 15 Apr 2020 22:20:27: 6000000 INFO @ Wed, 15 Apr 2020 22:20:32: 2000000 INFO @ Wed, 15 Apr 2020 22:20:34: 7000000 INFO @ Wed, 15 Apr 2020 22:20:38: 3000000 INFO @ Wed, 15 Apr 2020 22:20:40: 8000000 INFO @ Wed, 15 Apr 2020 22:20:43: 4000000 INFO @ Wed, 15 Apr 2020 22:20:46: 9000000 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 22:20:49: 5000000 INFO @ Wed, 15 Apr 2020 22:20:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.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 22:20:50: #1 read tag files... INFO @ Wed, 15 Apr 2020 22:20:50: #1 read treatment tags... INFO @ Wed, 15 Apr 2020 22:20:52: 10000000 INFO @ Wed, 15 Apr 2020 22:20:58: 6000000 INFO @ Wed, 15 Apr 2020 22:20:58: 1000000 INFO @ Wed, 15 Apr 2020 22:20:59: 11000000 INFO @ Wed, 15 Apr 2020 22:21:05: 7000000 INFO @ Wed, 15 Apr 2020 22:21:05: 12000000 INFO @ Wed, 15 Apr 2020 22:21:05: 2000000 INFO @ Wed, 15 Apr 2020 22:21:12: 13000000 INFO @ Wed, 15 Apr 2020 22:21:12: 8000000 INFO @ Wed, 15 Apr 2020 22:21:12: 3000000 INFO @ Wed, 15 Apr 2020 22:21:18: 14000000 INFO @ Wed, 15 Apr 2020 22:21:18: 4000000 INFO @ Wed, 15 Apr 2020 22:21:18: 9000000 INFO @ Wed, 15 Apr 2020 22:21:24: 15000000 INFO @ Wed, 15 Apr 2020 22:21:25: 5000000 INFO @ Wed, 15 Apr 2020 22:21:26: 10000000 INFO @ Wed, 15 Apr 2020 22:21:31: 16000000 INFO @ Wed, 15 Apr 2020 22:21:33: 6000000 INFO @ Wed, 15 Apr 2020 22:21:33: 11000000 INFO @ Wed, 15 Apr 2020 22:21:38: 17000000 INFO @ Wed, 15 Apr 2020 22:21:39: 7000000 INFO @ Wed, 15 Apr 2020 22:21:40: 12000000 INFO @ Wed, 15 Apr 2020 22:21:44: 18000000 INFO @ Wed, 15 Apr 2020 22:21:46: 8000000 INFO @ Wed, 15 Apr 2020 22:21:47: 13000000 INFO @ Wed, 15 Apr 2020 22:21:50: 19000000 INFO @ Wed, 15 Apr 2020 22:21:52: 9000000 INFO @ Wed, 15 Apr 2020 22:21:53: 14000000 INFO @ Wed, 15 Apr 2020 22:21:56: 20000000 INFO @ Wed, 15 Apr 2020 22:21:59: 10000000 INFO @ Wed, 15 Apr 2020 22:22:00: 15000000 INFO @ Wed, 15 Apr 2020 22:22:02: 21000000 INFO @ Wed, 15 Apr 2020 22:22:06: 11000000 INFO @ Wed, 15 Apr 2020 22:22:07: 16000000 INFO @ Wed, 15 Apr 2020 22:22:08: 22000000 INFO @ Wed, 15 Apr 2020 22:22:12: 12000000 INFO @ Wed, 15 Apr 2020 22:22:14: 17000000 INFO @ Wed, 15 Apr 2020 22:22:15: 23000000 INFO @ Wed, 15 Apr 2020 22:22:19: 13000000 INFO @ Wed, 15 Apr 2020 22:22:20: 18000000 INFO @ Wed, 15 Apr 2020 22:22:21: 24000000 INFO @ Wed, 15 Apr 2020 22:22:26: 14000000 INFO @ Wed, 15 Apr 2020 22:22:27: 25000000 INFO @ Wed, 15 Apr 2020 22:22:27: 19000000 INFO @ Wed, 15 Apr 2020 22:22:33: 15000000 INFO @ Wed, 15 Apr 2020 22:22:33: 26000000 INFO @ Wed, 15 Apr 2020 22:22:34: 20000000 INFO @ Wed, 15 Apr 2020 22:22:39: 27000000 INFO @ Wed, 15 Apr 2020 22:22:40: 16000000 INFO @ Wed, 15 Apr 2020 22:22:40: 21000000 INFO @ Wed, 15 Apr 2020 22:22:45: 28000000 INFO @ Wed, 15 Apr 2020 22:22:48: 17000000 INFO @ Wed, 15 Apr 2020 22:22:48: 22000000 INFO @ Wed, 15 Apr 2020 22:22:51: 29000000 INFO @ Wed, 15 Apr 2020 22:22:56: 18000000 INFO @ Wed, 15 Apr 2020 22:22:57: 23000000 INFO @ Wed, 15 Apr 2020 22:22:58: 30000000 INFO @ Wed, 15 Apr 2020 22:23:04: 19000000 INFO @ Wed, 15 Apr 2020 22:23:04: 31000000 INFO @ Wed, 15 Apr 2020 22:23:04: 24000000 INFO @ Wed, 15 Apr 2020 22:23:10: 32000000 INFO @ Wed, 15 Apr 2020 22:23:10: 20000000 INFO @ Wed, 15 Apr 2020 22:23:11: 25000000 INFO @ Wed, 15 Apr 2020 22:23:16: 33000000 INFO @ Wed, 15 Apr 2020 22:23:17: 21000000 INFO @ Wed, 15 Apr 2020 22:23:17: 26000000 INFO @ Wed, 15 Apr 2020 22:23:23: 34000000 INFO @ Wed, 15 Apr 2020 22:23:23: 22000000 INFO @ Wed, 15 Apr 2020 22:23:23: 27000000 INFO @ Wed, 15 Apr 2020 22:23:30: 23000000 INFO @ Wed, 15 Apr 2020 22:23:30: 28000000 INFO @ Wed, 15 Apr 2020 22:23:30: 35000000 INFO @ Wed, 15 Apr 2020 22:23:37: 24000000 INFO @ Wed, 15 Apr 2020 22:23:37: 36000000 INFO @ Wed, 15 Apr 2020 22:23:37: 29000000 INFO @ Wed, 15 Apr 2020 22:23:43: 37000000 INFO @ Wed, 15 Apr 2020 22:23:43: 25000000 INFO @ Wed, 15 Apr 2020 22:23:44: 30000000 INFO @ Wed, 15 Apr 2020 22:23:49: 38000000 INFO @ Wed, 15 Apr 2020 22:23:50: 26000000 INFO @ Wed, 15 Apr 2020 22:23:50: 31000000 INFO @ Wed, 15 Apr 2020 22:23:55: 39000000 INFO @ Wed, 15 Apr 2020 22:23:57: 27000000 INFO @ Wed, 15 Apr 2020 22:23:58: 32000000 INFO @ Wed, 15 Apr 2020 22:24:02: 40000000 INFO @ Wed, 15 Apr 2020 22:24:06: 28000000 INFO @ Wed, 15 Apr 2020 22:24:06: 33000000 INFO @ Wed, 15 Apr 2020 22:24:08: 41000000 INFO @ Wed, 15 Apr 2020 22:24:12: 29000000 INFO @ Wed, 15 Apr 2020 22:24:13: 34000000 INFO @ Wed, 15 Apr 2020 22:24:14: 42000000 INFO @ Wed, 15 Apr 2020 22:24:18: #1 tag size is determined as 50 bps INFO @ Wed, 15 Apr 2020 22:24:18: #1 tag size = 50 INFO @ Wed, 15 Apr 2020 22:24:18: #1 total tags in treatment: 42507150 INFO @ Wed, 15 Apr 2020 22:24:18: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 22:24:18: #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 22:24:18: #1 tags after filtering in treatment: 42507150 INFO @ Wed, 15 Apr 2020 22:24:18: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 22:24:18: #1 finished! INFO @ Wed, 15 Apr 2020 22:24:18: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 22:24:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 22:24:19: 30000000 INFO @ Wed, 15 Apr 2020 22:24:20: 35000000 INFO @ Wed, 15 Apr 2020 22:24:21: #2 number of paired peaks: 0 WARNING @ Wed, 15 Apr 2020 22:24:21: 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, 15 Apr 2020 22:24:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.05_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/SRX6619594/SRX6619594.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 15 Apr 2020 22:24:26: 31000000 INFO @ Wed, 15 Apr 2020 22:24:26: 36000000 INFO @ Wed, 15 Apr 2020 22:24:34: 37000000 INFO @ Wed, 15 Apr 2020 22:24:34: 32000000 INFO @ Wed, 15 Apr 2020 22:24:40: 38000000 INFO @ Wed, 15 Apr 2020 22:24:43: 33000000 INFO @ Wed, 15 Apr 2020 22:24:46: 39000000 INFO @ Wed, 15 Apr 2020 22:24:50: 34000000 INFO @ Wed, 15 Apr 2020 22:24:52: 40000000 INFO @ Wed, 15 Apr 2020 22:24:57: 35000000 INFO @ Wed, 15 Apr 2020 22:24:58: 41000000 INFO @ Wed, 15 Apr 2020 22:25:03: 36000000 INFO @ Wed, 15 Apr 2020 22:25:04: 42000000 INFO @ Wed, 15 Apr 2020 22:25:08: #1 tag size is determined as 50 bps INFO @ Wed, 15 Apr 2020 22:25:08: #1 tag size = 50 INFO @ Wed, 15 Apr 2020 22:25:08: #1 total tags in treatment: 42507150 INFO @ Wed, 15 Apr 2020 22:25:08: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 22:25:08: #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 22:25:09: #1 tags after filtering in treatment: 42507150 INFO @ Wed, 15 Apr 2020 22:25:09: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 22:25:09: #1 finished! INFO @ Wed, 15 Apr 2020 22:25:09: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 22:25:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 22:25:09: 37000000 INFO @ Wed, 15 Apr 2020 22:25:11: #2 number of paired peaks: 0 WARNING @ Wed, 15 Apr 2020 22:25:11: 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, 15 Apr 2020 22:25:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.10_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/SRX6619594/SRX6619594.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 15 Apr 2020 22:25:15: 38000000 INFO @ Wed, 15 Apr 2020 22:25:20: 39000000 INFO @ Wed, 15 Apr 2020 22:25:26: 40000000 INFO @ Wed, 15 Apr 2020 22:25:31: 41000000 INFO @ Wed, 15 Apr 2020 22:25:37: 42000000 INFO @ Wed, 15 Apr 2020 22:25:40: #1 tag size is determined as 50 bps INFO @ Wed, 15 Apr 2020 22:25:40: #1 tag size = 50 INFO @ Wed, 15 Apr 2020 22:25:40: #1 total tags in treatment: 42507150 INFO @ Wed, 15 Apr 2020 22:25:40: #1 user defined the maximum tags... INFO @ Wed, 15 Apr 2020 22:25:40: #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 22:25:41: #1 tags after filtering in treatment: 42507150 INFO @ Wed, 15 Apr 2020 22:25:41: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 15 Apr 2020 22:25:41: #1 finished! INFO @ Wed, 15 Apr 2020 22:25:41: #2 Build Peak Model... INFO @ Wed, 15 Apr 2020 22:25:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 15 Apr 2020 22:25:44: #2 number of paired peaks: 0 WARNING @ Wed, 15 Apr 2020 22:25:44: 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, 15 Apr 2020 22:25:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.20_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/SRX6619594/SRX6619594.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce10/SRX6619594/SRX6619594.20_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。