Job ID = 6366769 SRX = SRX2249335 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T23:07:38 prefetch.2.10.7: 1) Downloading 'SRR4427774'... 2020-06-15T23:07:38 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:12:15 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:12:15 prefetch.2.10.7: 1) 'SRR4427774' was downloaded successfully 2020-06-15T23:12:48 prefetch.2.10.7: 'SRR4427774' has 6 unresolved dependencies 2020-06-15T23:12:48 prefetch.2.10.7: 2) Downloading 'ncbi-acc:BX284601.4?vdb-ctx=refseq'... 2020-06-15T23:12:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:13:04 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:13:04 prefetch.2.10.7: 2) 'ncbi-acc:BX284601.4?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:13:04 prefetch.2.10.7: 3) Downloading 'ncbi-acc:BX284602.4?vdb-ctx=refseq'... 2020-06-15T23:13:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:13:20 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:13:20 prefetch.2.10.7: 3) 'ncbi-acc:BX284602.4?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:13:20 prefetch.2.10.7: 4) Downloading 'ncbi-acc:BX284603.3?vdb-ctx=refseq'... 2020-06-15T23:13:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:13:35 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:13:35 prefetch.2.10.7: 4) 'ncbi-acc:BX284603.3?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:13:35 prefetch.2.10.7: 5) Downloading 'ncbi-acc:BX284604.3?vdb-ctx=refseq'... 2020-06-15T23:13:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:13:52 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:13:52 prefetch.2.10.7: 5) 'ncbi-acc:BX284604.3?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:13:52 prefetch.2.10.7: 6) Downloading 'ncbi-acc:BX284605.4?vdb-ctx=refseq'... 2020-06-15T23:13:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:14:10 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:14:10 prefetch.2.10.7: 6) 'ncbi-acc:BX284605.4?vdb-ctx=refseq' was downloaded successfully 2020-06-15T23:14:10 prefetch.2.10.7: 7) Downloading 'ncbi-acc:BX284606.4?vdb-ctx=refseq'... 2020-06-15T23:14:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:14:26 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:14:26 prefetch.2.10.7: 7) 'ncbi-acc:BX284606.4?vdb-ctx=refseq' was downloaded successfully Read 53777861 spots for SRR4427774/SRR4427774.sra Written 53777861 spots for SRR4427774/SRR4427774.sra 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: 00:19:40 53777861 reads; of these: 53777861 (100.00%) were unpaired; of these: 5668551 (10.54%) aligned 0 times 38469957 (71.53%) aligned exactly 1 time 9639353 (17.92%) aligned >1 times 89.46% overall alignment rate Time searching: 00:19:40 Overall time: 00:19:40 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 20 files... [bam_rmdupse_core] 13773946 / 48109310 = 0.2863 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 @ Tue, 16 Jun 2020 08:52:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.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 @ Tue, 16 Jun 2020 08:52:42: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:52:42: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:52:50: 1000000 INFO @ Tue, 16 Jun 2020 08:52:57: 2000000 INFO @ Tue, 16 Jun 2020 08:53:05: 3000000 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 @ Tue, 16 Jun 2020 08:53:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.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 @ Tue, 16 Jun 2020 08:53:12: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:53:12: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:53:12: 4000000 INFO @ Tue, 16 Jun 2020 08:53:21: 5000000 INFO @ Tue, 16 Jun 2020 08:53:21: 1000000 INFO @ Tue, 16 Jun 2020 08:53:29: 2000000 INFO @ Tue, 16 Jun 2020 08:53:29: 6000000 INFO @ Tue, 16 Jun 2020 08:53:38: 3000000 INFO @ Tue, 16 Jun 2020 08:53:38: 7000000 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 @ Tue, 16 Jun 2020 08:53:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.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 @ Tue, 16 Jun 2020 08:53:42: #1 read tag files... INFO @ Tue, 16 Jun 2020 08:53:42: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 08:53:46: 8000000 INFO @ Tue, 16 Jun 2020 08:53:47: 4000000 INFO @ Tue, 16 Jun 2020 08:53:51: 1000000 INFO @ Tue, 16 Jun 2020 08:53:55: 9000000 INFO @ Tue, 16 Jun 2020 08:53:56: 5000000 INFO @ Tue, 16 Jun 2020 08:54:00: 2000000 INFO @ Tue, 16 Jun 2020 08:54:03: 10000000 INFO @ Tue, 16 Jun 2020 08:54:04: 6000000 INFO @ Tue, 16 Jun 2020 08:54:08: 3000000 INFO @ Tue, 16 Jun 2020 08:54:12: 11000000 INFO @ Tue, 16 Jun 2020 08:54:13: 7000000 INFO @ Tue, 16 Jun 2020 08:54:17: 4000000 INFO @ Tue, 16 Jun 2020 08:54:20: 12000000 INFO @ Tue, 16 Jun 2020 08:54:22: 8000000 INFO @ Tue, 16 Jun 2020 08:54:26: 5000000 INFO @ Tue, 16 Jun 2020 08:54:28: 13000000 INFO @ Tue, 16 Jun 2020 08:54:30: 9000000 INFO @ Tue, 16 Jun 2020 08:54:34: 6000000 INFO @ Tue, 16 Jun 2020 08:54:37: 14000000 INFO @ Tue, 16 Jun 2020 08:54:39: 10000000 INFO @ Tue, 16 Jun 2020 08:54:43: 7000000 INFO @ Tue, 16 Jun 2020 08:54:45: 15000000 INFO @ Tue, 16 Jun 2020 08:54:48: 11000000 INFO @ Tue, 16 Jun 2020 08:54:52: 8000000 INFO @ Tue, 16 Jun 2020 08:54:54: 16000000 INFO @ Tue, 16 Jun 2020 08:54:57: 12000000 INFO @ Tue, 16 Jun 2020 08:55:01: 9000000 INFO @ Tue, 16 Jun 2020 08:55:02: 17000000 INFO @ Tue, 16 Jun 2020 08:55:06: 13000000 INFO @ Tue, 16 Jun 2020 08:55:10: 10000000 INFO @ Tue, 16 Jun 2020 08:55:11: 18000000 INFO @ Tue, 16 Jun 2020 08:55:15: 14000000 INFO @ Tue, 16 Jun 2020 08:55:19: 11000000 INFO @ Tue, 16 Jun 2020 08:55:19: 19000000 INFO @ Tue, 16 Jun 2020 08:55:24: 15000000 INFO @ Tue, 16 Jun 2020 08:55:28: 20000000 INFO @ Tue, 16 Jun 2020 08:55:28: 12000000 INFO @ Tue, 16 Jun 2020 08:55:33: 16000000 INFO @ Tue, 16 Jun 2020 08:55:36: 21000000 INFO @ Tue, 16 Jun 2020 08:55:37: 13000000 INFO @ Tue, 16 Jun 2020 08:55:42: 17000000 INFO @ Tue, 16 Jun 2020 08:55:45: 22000000 INFO @ Tue, 16 Jun 2020 08:55:45: 14000000 INFO @ Tue, 16 Jun 2020 08:55:50: 18000000 INFO @ Tue, 16 Jun 2020 08:55:53: 23000000 INFO @ Tue, 16 Jun 2020 08:55:54: 15000000 INFO @ Tue, 16 Jun 2020 08:55:59: 19000000 INFO @ Tue, 16 Jun 2020 08:56:02: 24000000 INFO @ Tue, 16 Jun 2020 08:56:03: 16000000 INFO @ Tue, 16 Jun 2020 08:56:07: 20000000 INFO @ Tue, 16 Jun 2020 08:56:10: 25000000 INFO @ Tue, 16 Jun 2020 08:56:11: 17000000 INFO @ Tue, 16 Jun 2020 08:56:16: 21000000 INFO @ Tue, 16 Jun 2020 08:56:19: 26000000 INFO @ Tue, 16 Jun 2020 08:56:20: 18000000 INFO @ Tue, 16 Jun 2020 08:56:25: 22000000 INFO @ Tue, 16 Jun 2020 08:56:27: 27000000 INFO @ Tue, 16 Jun 2020 08:56:29: 19000000 INFO @ Tue, 16 Jun 2020 08:56:33: 23000000 INFO @ Tue, 16 Jun 2020 08:56:36: 28000000 INFO @ Tue, 16 Jun 2020 08:56:37: 20000000 INFO @ Tue, 16 Jun 2020 08:56:42: 24000000 INFO @ Tue, 16 Jun 2020 08:56:44: 29000000 INFO @ Tue, 16 Jun 2020 08:56:46: 21000000 INFO @ Tue, 16 Jun 2020 08:56:51: 25000000 INFO @ Tue, 16 Jun 2020 08:56:53: 30000000 INFO @ Tue, 16 Jun 2020 08:56:54: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 08:56:59: 26000000 INFO @ Tue, 16 Jun 2020 08:57:02: 31000000 INFO @ Tue, 16 Jun 2020 08:57:03: 23000000 INFO @ Tue, 16 Jun 2020 08:57:08: 27000000 INFO @ Tue, 16 Jun 2020 08:57:10: 32000000 INFO @ Tue, 16 Jun 2020 08:57:11: 24000000 INFO @ Tue, 16 Jun 2020 08:57:17: 28000000 INFO @ Tue, 16 Jun 2020 08:57:19: 33000000 INFO @ Tue, 16 Jun 2020 08:57:20: 25000000 INFO @ Tue, 16 Jun 2020 08:57:26: 29000000 INFO @ Tue, 16 Jun 2020 08:57:27: 34000000 INFO @ Tue, 16 Jun 2020 08:57:29: 26000000 INFO @ Tue, 16 Jun 2020 08:57:30: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 08:57:30: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 08:57:30: #1 total tags in treatment: 34335364 INFO @ Tue, 16 Jun 2020 08:57:30: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:57:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:57:31: #1 tags after filtering in treatment: 34335364 INFO @ Tue, 16 Jun 2020 08:57:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:57:31: #1 finished! INFO @ Tue, 16 Jun 2020 08:57:31: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:57:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:57:33: #2 number of paired peaks: 37 WARNING @ Tue, 16 Jun 2020 08:57:33: Too few paired peaks (37) 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 @ Tue, 16 Jun 2020 08:57:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.05_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/ce11/SRX2249335/SRX2249335.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:57:34: 30000000 INFO @ Tue, 16 Jun 2020 08:57:38: 27000000 INFO @ Tue, 16 Jun 2020 08:57:43: 31000000 INFO @ Tue, 16 Jun 2020 08:57:46: 28000000 INFO @ Tue, 16 Jun 2020 08:57:51: 32000000 INFO @ Tue, 16 Jun 2020 08:57:54: 29000000 INFO @ Tue, 16 Jun 2020 08:58:00: 33000000 INFO @ Tue, 16 Jun 2020 08:58:03: 30000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 08:58:08: 34000000 INFO @ Tue, 16 Jun 2020 08:58:11: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 08:58:11: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 08:58:11: #1 total tags in treatment: 34335364 INFO @ Tue, 16 Jun 2020 08:58:11: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:58:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:58:12: 31000000 INFO @ Tue, 16 Jun 2020 08:58:12: #1 tags after filtering in treatment: 34335364 INFO @ Tue, 16 Jun 2020 08:58:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:58:12: #1 finished! INFO @ Tue, 16 Jun 2020 08:58:12: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:58:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:58:14: #2 number of paired peaks: 37 WARNING @ Tue, 16 Jun 2020 08:58:14: Too few paired peaks (37) 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 @ Tue, 16 Jun 2020 08:58:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.10_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/ce11/SRX2249335/SRX2249335.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 08:58:19: 32000000 INFO @ Tue, 16 Jun 2020 08:58:27: 33000000 INFO @ Tue, 16 Jun 2020 08:58:35: 34000000 INFO @ Tue, 16 Jun 2020 08:58:38: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 08:58:38: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 08:58:38: #1 total tags in treatment: 34335364 INFO @ Tue, 16 Jun 2020 08:58:38: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 08:58:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 08:58:38: #1 tags after filtering in treatment: 34335364 INFO @ Tue, 16 Jun 2020 08:58:38: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 08:58:38: #1 finished! INFO @ Tue, 16 Jun 2020 08:58:38: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 08:58:38: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 08:58:40: #2 number of paired peaks: 37 WARNING @ Tue, 16 Jun 2020 08:58:40: Too few paired peaks (37) 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 @ Tue, 16 Jun 2020 08:58:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/ce11/SRX2249335/SRX2249335.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling