Job ID = 6528368 SRX = SRX5431049 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:51:24 prefetch.2.10.7: 1) Downloading 'SRR8632348'... 2020-06-29T14:51:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:54:24 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:54:24 prefetch.2.10.7: 1) 'SRR8632348' was downloaded successfully Read 26572722 spots for SRR8632348/SRR8632348.sra Written 26572722 spots for SRR8632348/SRR8632348.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: 00:50:24 26572722 reads; of these: 26572722 (100.00%) were paired; of these: 3241163 (12.20%) aligned concordantly 0 times 16374699 (61.62%) aligned concordantly exactly 1 time 6956860 (26.18%) aligned concordantly >1 times ---- 3241163 pairs aligned concordantly 0 times; of these: 186565 (5.76%) aligned discordantly 1 time ---- 3054598 pairs aligned 0 times concordantly or discordantly; of these: 6109196 mates make up the pairs; of these: 4931785 (80.73%) aligned 0 times 522582 (8.55%) aligned exactly 1 time 654829 (10.72%) aligned >1 times 90.72% overall alignment rate Time searching: 00:50:24 Overall time: 00:50:24 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 20 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 1130671 / 23476053 = 0.0482 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, 30 Jun 2020 01:10:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.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 @ Tue, 30 Jun 2020 01:10:17: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:10:17: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:10:24: 1000000 INFO @ Tue, 30 Jun 2020 01:10:30: 2000000 INFO @ Tue, 30 Jun 2020 01:10:37: 3000000 INFO @ Tue, 30 Jun 2020 01:10:43: 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 @ Tue, 30 Jun 2020 01:10:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.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 @ Tue, 30 Jun 2020 01:10:47: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:10:47: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:10:50: 5000000 INFO @ Tue, 30 Jun 2020 01:10:54: 1000000 INFO @ Tue, 30 Jun 2020 01:10:57: 6000000 INFO @ Tue, 30 Jun 2020 01:11:01: 2000000 INFO @ Tue, 30 Jun 2020 01:11:04: 7000000 INFO @ Tue, 30 Jun 2020 01:11:08: 3000000 INFO @ Tue, 30 Jun 2020 01:11:11: 8000000 INFO @ Tue, 30 Jun 2020 01:11:14: 4000000 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, 30 Jun 2020 01:11:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.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 @ Tue, 30 Jun 2020 01:11:17: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:11:17: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:11:18: 9000000 INFO @ Tue, 30 Jun 2020 01:11:21: 5000000 INFO @ Tue, 30 Jun 2020 01:11:24: 1000000 INFO @ Tue, 30 Jun 2020 01:11:25: 10000000 INFO @ Tue, 30 Jun 2020 01:11:28: 6000000 INFO @ Tue, 30 Jun 2020 01:11:31: 2000000 INFO @ Tue, 30 Jun 2020 01:11:32: 11000000 INFO @ Tue, 30 Jun 2020 01:11:35: 7000000 INFO @ Tue, 30 Jun 2020 01:11:38: 3000000 INFO @ Tue, 30 Jun 2020 01:11:39: 12000000 INFO @ Tue, 30 Jun 2020 01:11:42: 8000000 INFO @ Tue, 30 Jun 2020 01:11:45: 4000000 INFO @ Tue, 30 Jun 2020 01:11:46: 13000000 INFO @ Tue, 30 Jun 2020 01:11:49: 9000000 INFO @ Tue, 30 Jun 2020 01:11:52: 5000000 INFO @ Tue, 30 Jun 2020 01:11:53: 14000000 INFO @ Tue, 30 Jun 2020 01:11:56: 10000000 INFO @ Tue, 30 Jun 2020 01:11:59: 6000000 INFO @ Tue, 30 Jun 2020 01:12:00: 15000000 INFO @ Tue, 30 Jun 2020 01:12:03: 11000000 INFO @ Tue, 30 Jun 2020 01:12:06: 7000000 INFO @ Tue, 30 Jun 2020 01:12:07: 16000000 INFO @ Tue, 30 Jun 2020 01:12:09: 12000000 INFO @ Tue, 30 Jun 2020 01:12:13: 8000000 INFO @ Tue, 30 Jun 2020 01:12:14: 17000000 INFO @ Tue, 30 Jun 2020 01:12:16: 13000000 INFO @ Tue, 30 Jun 2020 01:12:19: 9000000 INFO @ Tue, 30 Jun 2020 01:12:21: 18000000 INFO @ Tue, 30 Jun 2020 01:12:23: 14000000 INFO @ Tue, 30 Jun 2020 01:12:26: 10000000 INFO @ Tue, 30 Jun 2020 01:12:28: 19000000 INFO @ Tue, 30 Jun 2020 01:12:30: 15000000 INFO @ Tue, 30 Jun 2020 01:12:33: 11000000 INFO @ Tue, 30 Jun 2020 01:12:35: 20000000 INFO @ Tue, 30 Jun 2020 01:12:37: 16000000 INFO @ Tue, 30 Jun 2020 01:12:40: 12000000 INFO @ Tue, 30 Jun 2020 01:12:42: 21000000 INFO @ Tue, 30 Jun 2020 01:12:43: 17000000 INFO @ Tue, 30 Jun 2020 01:12:47: 13000000 INFO @ Tue, 30 Jun 2020 01:12:49: 22000000 INFO @ Tue, 30 Jun 2020 01:12:50: 18000000 INFO @ Tue, 30 Jun 2020 01:12:54: 14000000 INFO @ Tue, 30 Jun 2020 01:12:56: 23000000 INFO @ Tue, 30 Jun 2020 01:12:57: 19000000 INFO @ Tue, 30 Jun 2020 01:13:00: 15000000 INFO @ Tue, 30 Jun 2020 01:13:03: 24000000 INFO @ Tue, 30 Jun 2020 01:13:04: 20000000 INFO @ Tue, 30 Jun 2020 01:13:07: 16000000 INFO @ Tue, 30 Jun 2020 01:13:10: 25000000 INFO @ Tue, 30 Jun 2020 01:13:11: 21000000 INFO @ Tue, 30 Jun 2020 01:13:14: 17000000 INFO @ Tue, 30 Jun 2020 01:13:16: 26000000 INFO @ Tue, 30 Jun 2020 01:13:17: 22000000 INFO @ Tue, 30 Jun 2020 01:13:21: 18000000 INFO @ Tue, 30 Jun 2020 01:13:23: 27000000 INFO @ Tue, 30 Jun 2020 01:13:24: 23000000 INFO @ Tue, 30 Jun 2020 01:13:28: 19000000 INFO @ Tue, 30 Jun 2020 01:13:30: 28000000 INFO @ Tue, 30 Jun 2020 01:13:31: 24000000 INFO @ Tue, 30 Jun 2020 01:13:34: 20000000 INFO @ Tue, 30 Jun 2020 01:13:37: 29000000 INFO @ Tue, 30 Jun 2020 01:13:38: 25000000 INFO @ Tue, 30 Jun 2020 01:13:41: 21000000 INFO @ Tue, 30 Jun 2020 01:13:44: 30000000 INFO @ Tue, 30 Jun 2020 01:13:45: 26000000 INFO @ Tue, 30 Jun 2020 01:13:48: 22000000 INFO @ Tue, 30 Jun 2020 01:13:51: 31000000 INFO @ Tue, 30 Jun 2020 01:13:51: 27000000 INFO @ Tue, 30 Jun 2020 01:13:55: 23000000 INFO @ Tue, 30 Jun 2020 01:13:58: 32000000 INFO @ Tue, 30 Jun 2020 01:13:58: 28000000 INFO @ Tue, 30 Jun 2020 01:14:02: 24000000 INFO @ Tue, 30 Jun 2020 01:14:05: 29000000 INFO @ Tue, 30 Jun 2020 01:14:05: 33000000 INFO @ Tue, 30 Jun 2020 01:14:08: 25000000 INFO @ Tue, 30 Jun 2020 01:14:12: 30000000 INFO @ Tue, 30 Jun 2020 01:14:12: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:14:15: 26000000 INFO @ Tue, 30 Jun 2020 01:14:19: 31000000 INFO @ Tue, 30 Jun 2020 01:14:19: 35000000 INFO @ Tue, 30 Jun 2020 01:14:22: 27000000 INFO @ Tue, 30 Jun 2020 01:14:26: 32000000 INFO @ Tue, 30 Jun 2020 01:14:27: 36000000 INFO @ Tue, 30 Jun 2020 01:14:29: 28000000 INFO @ Tue, 30 Jun 2020 01:14:32: 33000000 INFO @ Tue, 30 Jun 2020 01:14:34: 37000000 INFO @ Tue, 30 Jun 2020 01:14:36: 29000000 INFO @ Tue, 30 Jun 2020 01:14:39: 34000000 INFO @ Tue, 30 Jun 2020 01:14:41: 38000000 INFO @ Tue, 30 Jun 2020 01:14:42: 30000000 INFO @ Tue, 30 Jun 2020 01:14:46: 35000000 INFO @ Tue, 30 Jun 2020 01:14:48: 39000000 INFO @ Tue, 30 Jun 2020 01:14:49: 31000000 INFO @ Tue, 30 Jun 2020 01:14:53: 36000000 INFO @ Tue, 30 Jun 2020 01:14:54: 40000000 INFO @ Tue, 30 Jun 2020 01:14:56: 32000000 INFO @ Tue, 30 Jun 2020 01:15:00: 37000000 INFO @ Tue, 30 Jun 2020 01:15:01: 41000000 INFO @ Tue, 30 Jun 2020 01:15:03: 33000000 INFO @ Tue, 30 Jun 2020 01:15:07: 38000000 INFO @ Tue, 30 Jun 2020 01:15:08: 42000000 INFO @ Tue, 30 Jun 2020 01:15:10: 34000000 INFO @ Tue, 30 Jun 2020 01:15:14: 39000000 INFO @ Tue, 30 Jun 2020 01:15:15: 43000000 INFO @ Tue, 30 Jun 2020 01:15:16: 35000000 INFO @ Tue, 30 Jun 2020 01:15:20: 40000000 INFO @ Tue, 30 Jun 2020 01:15:22: 44000000 INFO @ Tue, 30 Jun 2020 01:15:23: 36000000 INFO @ Tue, 30 Jun 2020 01:15:27: 41000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:15:29: 45000000 INFO @ Tue, 30 Jun 2020 01:15:30: 37000000 INFO @ Tue, 30 Jun 2020 01:15:34: 42000000 INFO @ Tue, 30 Jun 2020 01:15:36: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:15:36: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:15:36: #1 total tags in treatment: 22206434 INFO @ Tue, 30 Jun 2020 01:15:36: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:15:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:15:36: #1 tags after filtering in treatment: 18496002 INFO @ Tue, 30 Jun 2020 01:15:36: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 30 Jun 2020 01:15:36: #1 finished! INFO @ Tue, 30 Jun 2020 01:15:36: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:15:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:15:37: 38000000 INFO @ Tue, 30 Jun 2020 01:15:38: #2 number of paired peaks: 2 WARNING @ Tue, 30 Jun 2020 01:15:38: Too few paired peaks (2) 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, 30 Jun 2020 01:15:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.05_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/SRX5431049/SRX5431049.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:15:41: 43000000 INFO @ Tue, 30 Jun 2020 01:15:44: 39000000 INFO @ Tue, 30 Jun 2020 01:15:47: 44000000 INFO @ Tue, 30 Jun 2020 01:15:50: 40000000 INFO @ Tue, 30 Jun 2020 01:15:53: 45000000 INFO @ Tue, 30 Jun 2020 01:15:57: 41000000 INFO @ Tue, 30 Jun 2020 01:15:59: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:15:59: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:15:59: #1 total tags in treatment: 22206434 INFO @ Tue, 30 Jun 2020 01:15:59: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:15:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:16:00: #1 tags after filtering in treatment: 18496002 INFO @ Tue, 30 Jun 2020 01:16:00: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 30 Jun 2020 01:16:00: #1 finished! INFO @ Tue, 30 Jun 2020 01:16:00: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:16:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:16:01: #2 number of paired peaks: 2 WARNING @ Tue, 30 Jun 2020 01:16:01: Too few paired peaks (2) 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, 30 Jun 2020 01:16:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.10_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/SRX5431049/SRX5431049.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:16:03: 42000000 INFO @ Tue, 30 Jun 2020 01:16:08: 43000000 INFO @ Tue, 30 Jun 2020 01:16:14: 44000000 INFO @ Tue, 30 Jun 2020 01:16:20: 45000000 INFO @ Tue, 30 Jun 2020 01:16:25: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:16:25: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:16:25: #1 total tags in treatment: 22206434 INFO @ Tue, 30 Jun 2020 01:16:25: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:16:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:16:26: #1 tags after filtering in treatment: 18496002 INFO @ Tue, 30 Jun 2020 01:16:26: #1 Redundant rate of treatment: 0.17 INFO @ Tue, 30 Jun 2020 01:16:26: #1 finished! INFO @ Tue, 30 Jun 2020 01:16:26: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:16:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:16:27: #2 number of paired peaks: 2 WARNING @ Tue, 30 Jun 2020 01:16:27: Too few paired peaks (2) 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, 30 Jun 2020 01:16:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.20_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/SRX5431049/SRX5431049.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431049/SRX5431049.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling