Job ID = 5720721 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-04-15T16:06:02 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 : 26,853,840 reads read : 26,853,840 reads written : 26,853,840 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: 00:05:53 26853840 reads; of these: 26853840 (100.00%) were unpaired; of these: 962823 (3.59%) aligned 0 times 21250476 (79.13%) aligned exactly 1 time 4640541 (17.28%) aligned >1 times 96.41% overall alignment rate Time searching: 00:05:53 Overall time: 00:05:53 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 4235112 / 25891017 = 0.1636 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 01:24:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.bam'] # control file = None # effective genome size = 1.20e+08 # 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 01:24:49: #1 read tag files... INFO @ Thu, 16 Apr 2020 01:24:49: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 01:24:53: 1000000 INFO @ Thu, 16 Apr 2020 01:24:58: 2000000 INFO @ Thu, 16 Apr 2020 01:25:03: 3000000 INFO @ Thu, 16 Apr 2020 01:25:07: 4000000 INFO @ Thu, 16 Apr 2020 01:25:12: 5000000 INFO @ Thu, 16 Apr 2020 01:25:17: 6000000 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 01:25:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.bam'] # control file = None # effective genome size = 1.20e+08 # 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 01:25:19: #1 read tag files... INFO @ Thu, 16 Apr 2020 01:25:19: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 01:25:21: 7000000 INFO @ Thu, 16 Apr 2020 01:25:23: 1000000 INFO @ Thu, 16 Apr 2020 01:25:26: 8000000 INFO @ Thu, 16 Apr 2020 01:25:28: 2000000 INFO @ Thu, 16 Apr 2020 01:25:31: 9000000 INFO @ Thu, 16 Apr 2020 01:25:33: 3000000 INFO @ Thu, 16 Apr 2020 01:25:35: 10000000 INFO @ Thu, 16 Apr 2020 01:25:37: 4000000 INFO @ Thu, 16 Apr 2020 01:25:40: 11000000 INFO @ Thu, 16 Apr 2020 01:25:42: 5000000 INFO @ Thu, 16 Apr 2020 01:25:45: 12000000 INFO @ Thu, 16 Apr 2020 01:25:47: 6000000 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 01:25:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.bam'] # control file = None # effective genome size = 1.20e+08 # 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 01:25:49: #1 read tag files... INFO @ Thu, 16 Apr 2020 01:25:49: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 01:25:49: 13000000 INFO @ Thu, 16 Apr 2020 01:25:51: 7000000 INFO @ Thu, 16 Apr 2020 01:25:54: 1000000 INFO @ Thu, 16 Apr 2020 01:25:54: 14000000 INFO @ Thu, 16 Apr 2020 01:25:56: 8000000 INFO @ Thu, 16 Apr 2020 01:25:58: 2000000 INFO @ Thu, 16 Apr 2020 01:25:59: 15000000 INFO @ Thu, 16 Apr 2020 01:26:01: 9000000 INFO @ Thu, 16 Apr 2020 01:26:03: 3000000 INFO @ Thu, 16 Apr 2020 01:26:03: 16000000 INFO @ Thu, 16 Apr 2020 01:26:05: 10000000 INFO @ Thu, 16 Apr 2020 01:26:08: 4000000 INFO @ Thu, 16 Apr 2020 01:26:08: 17000000 INFO @ Thu, 16 Apr 2020 01:26:10: 11000000 INFO @ Thu, 16 Apr 2020 01:26:13: 5000000 INFO @ Thu, 16 Apr 2020 01:26:13: 18000000 INFO @ Thu, 16 Apr 2020 01:26:15: 12000000 INFO @ Thu, 16 Apr 2020 01:26:18: 6000000 INFO @ Thu, 16 Apr 2020 01:26:18: 19000000 INFO @ Thu, 16 Apr 2020 01:26:20: 13000000 INFO @ Thu, 16 Apr 2020 01:26:22: 7000000 INFO @ Thu, 16 Apr 2020 01:26:23: 20000000 INFO @ Thu, 16 Apr 2020 01:26:24: 14000000 INFO @ Thu, 16 Apr 2020 01:26:27: 8000000 INFO @ Thu, 16 Apr 2020 01:26:27: 21000000 INFO @ Thu, 16 Apr 2020 01:26:29: 15000000 INFO @ Thu, 16 Apr 2020 01:26:31: #1 tag size is determined as 50 bps INFO @ Thu, 16 Apr 2020 01:26:31: #1 tag size = 50 INFO @ Thu, 16 Apr 2020 01:26:31: #1 total tags in treatment: 21655905 INFO @ Thu, 16 Apr 2020 01:26:31: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:26:31: #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 01:26:31: #1 tags after filtering in treatment: 21655905 INFO @ Thu, 16 Apr 2020 01:26:31: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 01:26:31: #1 finished! INFO @ Thu, 16 Apr 2020 01:26:31: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:26:31: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:26:32: 9000000 INFO @ Thu, 16 Apr 2020 01:26:33: #2 number of paired peaks: 92 WARNING @ Thu, 16 Apr 2020 01:26:33: Too few paired peaks (92) 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 01:26:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.05_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/dm3/SRX4158193/SRX4158193.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 01:26:34: 16000000 INFO @ Thu, 16 Apr 2020 01:26:36: 10000000 INFO @ Thu, 16 Apr 2020 01:26:38: 17000000 INFO @ Thu, 16 Apr 2020 01:26:41: 11000000 INFO @ Thu, 16 Apr 2020 01:26:43: 18000000 INFO @ Thu, 16 Apr 2020 01:26:46: 12000000 INFO @ Thu, 16 Apr 2020 01:26:47: 19000000 INFO @ Thu, 16 Apr 2020 01:26:50: 13000000 INFO @ Thu, 16 Apr 2020 01:26:52: 20000000 INFO @ Thu, 16 Apr 2020 01:26:55: 14000000 INFO @ Thu, 16 Apr 2020 01:26:57: 21000000 INFO @ Thu, 16 Apr 2020 01:27:00: 15000000 INFO @ Thu, 16 Apr 2020 01:27:00: #1 tag size is determined as 50 bps INFO @ Thu, 16 Apr 2020 01:27:00: #1 tag size = 50 INFO @ Thu, 16 Apr 2020 01:27:00: #1 total tags in treatment: 21655905 INFO @ Thu, 16 Apr 2020 01:27:00: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:27:00: #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 01:27:00: #1 tags after filtering in treatment: 21655905 INFO @ Thu, 16 Apr 2020 01:27:00: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 01:27:00: #1 finished! INFO @ Thu, 16 Apr 2020 01:27:00: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:27:00: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:27:01: #2 number of paired peaks: 92 WARNING @ Thu, 16 Apr 2020 01:27:01: Too few paired peaks (92) 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 01:27:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.10_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/dm3/SRX4158193/SRX4158193.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 01:27:04: 16000000 INFO @ Thu, 16 Apr 2020 01:27:09: 17000000 INFO @ Thu, 16 Apr 2020 01:27:13: 18000000 INFO @ Thu, 16 Apr 2020 01:27:18: 19000000 INFO @ Thu, 16 Apr 2020 01:27:22: 20000000 INFO @ Thu, 16 Apr 2020 01:27:27: 21000000 INFO @ Thu, 16 Apr 2020 01:27:30: #1 tag size is determined as 50 bps INFO @ Thu, 16 Apr 2020 01:27:30: #1 tag size = 50 INFO @ Thu, 16 Apr 2020 01:27:30: #1 total tags in treatment: 21655905 INFO @ Thu, 16 Apr 2020 01:27:30: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:27:30: #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 01:27:30: #1 tags after filtering in treatment: 21655905 INFO @ Thu, 16 Apr 2020 01:27:30: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 16 Apr 2020 01:27:30: #1 finished! INFO @ Thu, 16 Apr 2020 01:27:30: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:27:30: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:27:32: #2 number of paired peaks: 92 WARNING @ Thu, 16 Apr 2020 01:27:32: Too few paired peaks (92) 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 01:27:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.20_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/dm3/SRX4158193/SRX4158193.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4158193/SRX4158193.20_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。