Job ID = 6527711 SRX = SRX2325658 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:12:03 prefetch.2.10.7: 1) Downloading 'SRR4896346'... 2020-06-29T13:12:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:20:58 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:20:58 prefetch.2.10.7: 1) 'SRR4896346' was downloaded successfully 2020-06-29T13:20:58 prefetch.2.10.7: 'SRR4896346' has 0 unresolved dependencies Read 81235118 spots for SRR4896346/SRR4896346.sra Written 81235118 spots for SRR4896346/SRR4896346.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: 00:00:01 Multiseed full-index search: 00:20:42 81235118 reads; of these: 81235118 (100.00%) were unpaired; of these: 42201836 (51.95%) aligned 0 times 32450985 (39.95%) aligned exactly 1 time 6582297 (8.10%) aligned >1 times 48.05% overall alignment rate Time searching: 00:20:43 Overall time: 00:20:43 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 16 files... [bam_rmdupse_core] 16003838 / 39033282 = 0.4100 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 @ Mon, 29 Jun 2020 23:21:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.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 @ Mon, 29 Jun 2020 23:21:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:21:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:21:42: 1000000 INFO @ Mon, 29 Jun 2020 23:21:49: 2000000 INFO @ Mon, 29 Jun 2020 23:21:55: 3000000 INFO @ Mon, 29 Jun 2020 23:22:01: 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 @ Mon, 29 Jun 2020 23:22:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.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 @ Mon, 29 Jun 2020 23:22:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:22:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:22:08: 5000000 INFO @ Mon, 29 Jun 2020 23:22:14: 1000000 INFO @ Mon, 29 Jun 2020 23:22:16: 6000000 INFO @ Mon, 29 Jun 2020 23:22:23: 2000000 INFO @ Mon, 29 Jun 2020 23:22:24: 7000000 INFO @ Mon, 29 Jun 2020 23:22:32: 8000000 INFO @ Mon, 29 Jun 2020 23:22:32: 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 @ Mon, 29 Jun 2020 23:22:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.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 @ Mon, 29 Jun 2020 23:22:35: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:22:35: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:22:40: 9000000 INFO @ Mon, 29 Jun 2020 23:22:41: 4000000 INFO @ Mon, 29 Jun 2020 23:22:43: 1000000 INFO @ Mon, 29 Jun 2020 23:22:48: 10000000 INFO @ Mon, 29 Jun 2020 23:22:50: 5000000 INFO @ Mon, 29 Jun 2020 23:22:52: 2000000 INFO @ Mon, 29 Jun 2020 23:22:56: 11000000 INFO @ Mon, 29 Jun 2020 23:22:59: 6000000 INFO @ Mon, 29 Jun 2020 23:23:00: 3000000 INFO @ Mon, 29 Jun 2020 23:23:04: 12000000 INFO @ Mon, 29 Jun 2020 23:23:08: 7000000 INFO @ Mon, 29 Jun 2020 23:23:08: 4000000 INFO @ Mon, 29 Jun 2020 23:23:12: 13000000 INFO @ Mon, 29 Jun 2020 23:23:16: 5000000 INFO @ Mon, 29 Jun 2020 23:23:16: 8000000 INFO @ Mon, 29 Jun 2020 23:23:21: 14000000 INFO @ Mon, 29 Jun 2020 23:23:25: 6000000 INFO @ Mon, 29 Jun 2020 23:23:25: 9000000 INFO @ Mon, 29 Jun 2020 23:23:29: 15000000 INFO @ Mon, 29 Jun 2020 23:23:33: 7000000 INFO @ Mon, 29 Jun 2020 23:23:34: 10000000 INFO @ Mon, 29 Jun 2020 23:23:37: 16000000 INFO @ Mon, 29 Jun 2020 23:23:41: 8000000 INFO @ Mon, 29 Jun 2020 23:23:43: 11000000 INFO @ Mon, 29 Jun 2020 23:23:46: 17000000 INFO @ Mon, 29 Jun 2020 23:23:50: 9000000 INFO @ Mon, 29 Jun 2020 23:23:51: 12000000 INFO @ Mon, 29 Jun 2020 23:23:54: 18000000 INFO @ Mon, 29 Jun 2020 23:23:58: 10000000 INFO @ Mon, 29 Jun 2020 23:24:00: 13000000 INFO @ Mon, 29 Jun 2020 23:24:03: 19000000 INFO @ Mon, 29 Jun 2020 23:24:06: 11000000 INFO @ Mon, 29 Jun 2020 23:24:09: 14000000 INFO @ Mon, 29 Jun 2020 23:24:11: 20000000 INFO @ Mon, 29 Jun 2020 23:24:15: 12000000 INFO @ Mon, 29 Jun 2020 23:24:18: 15000000 INFO @ Mon, 29 Jun 2020 23:24:20: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:24:23: 13000000 INFO @ Mon, 29 Jun 2020 23:24:26: 16000000 INFO @ Mon, 29 Jun 2020 23:24:28: 22000000 INFO @ Mon, 29 Jun 2020 23:24:32: 14000000 INFO @ Mon, 29 Jun 2020 23:24:35: 17000000 INFO @ Mon, 29 Jun 2020 23:24:37: 23000000 INFO @ Mon, 29 Jun 2020 23:24:37: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 23:24:37: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 23:24:37: #1 total tags in treatment: 23029444 INFO @ Mon, 29 Jun 2020 23:24:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:24:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:24:38: #1 tags after filtering in treatment: 23029444 INFO @ Mon, 29 Jun 2020 23:24:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:24:38: #1 finished! INFO @ Mon, 29 Jun 2020 23:24:38: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:24:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:24:39: #2 number of paired peaks: 13 WARNING @ Mon, 29 Jun 2020 23:24:39: Too few paired peaks (13) 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 @ Mon, 29 Jun 2020 23:24:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.05_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/SRX2325658/SRX2325658.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:24:40: 15000000 INFO @ Mon, 29 Jun 2020 23:24:44: 18000000 INFO @ Mon, 29 Jun 2020 23:24:49: 16000000 INFO @ Mon, 29 Jun 2020 23:24:53: 19000000 INFO @ Mon, 29 Jun 2020 23:24:57: 17000000 INFO @ Mon, 29 Jun 2020 23:25:02: 20000000 INFO @ Mon, 29 Jun 2020 23:25:05: 18000000 INFO @ Mon, 29 Jun 2020 23:25:11: 21000000 INFO @ Mon, 29 Jun 2020 23:25:13: 19000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 23:25:19: 22000000 INFO @ Mon, 29 Jun 2020 23:25:22: 20000000 INFO @ Mon, 29 Jun 2020 23:25:28: 23000000 INFO @ Mon, 29 Jun 2020 23:25:28: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 23:25:28: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 23:25:28: #1 total tags in treatment: 23029444 INFO @ Mon, 29 Jun 2020 23:25:28: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:25:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:25:29: #1 tags after filtering in treatment: 23029444 INFO @ Mon, 29 Jun 2020 23:25:29: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:25:29: #1 finished! INFO @ Mon, 29 Jun 2020 23:25:29: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:25:29: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:25:30: 21000000 INFO @ Mon, 29 Jun 2020 23:25:30: #2 number of paired peaks: 13 WARNING @ Mon, 29 Jun 2020 23:25:30: Too few paired peaks (13) 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 @ Mon, 29 Jun 2020 23:25:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.10_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/SRX2325658/SRX2325658.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:25:37: 22000000 INFO @ Mon, 29 Jun 2020 23:25:44: 23000000 INFO @ Mon, 29 Jun 2020 23:25:44: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 23:25:44: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 23:25:44: #1 total tags in treatment: 23029444 INFO @ Mon, 29 Jun 2020 23:25:44: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:25:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:25:45: #1 tags after filtering in treatment: 23029444 INFO @ Mon, 29 Jun 2020 23:25:45: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:25:45: #1 finished! INFO @ Mon, 29 Jun 2020 23:25:45: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:25:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:25:46: #2 number of paired peaks: 13 WARNING @ Mon, 29 Jun 2020 23:25:46: Too few paired peaks (13) 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 @ Mon, 29 Jun 2020 23:25:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.20_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/SRX2325658/SRX2325658.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325658/SRX2325658.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling