Job ID = 6528420 SRX = SRX6386754 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T15:10:51 prefetch.2.10.7: 1) Downloading 'SRR9624486'... 2020-06-29T15:10:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:27:32 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:27:32 prefetch.2.10.7: 1) 'SRR9624486' was downloaded successfully 2020-06-29T15:27:32 prefetch.2.10.7: 'SRR9624486' has 0 unresolved dependencies Read 40517362 spots for SRR9624486/SRR9624486.sra Written 40517362 spots for SRR9624486/SRR9624486.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: 01:56:17 40517362 reads; of these: 40517362 (100.00%) were paired; of these: 6464184 (15.95%) aligned concordantly 0 times 28685750 (70.80%) aligned concordantly exactly 1 time 5367428 (13.25%) aligned concordantly >1 times ---- 6464184 pairs aligned concordantly 0 times; of these: 2777899 (42.97%) aligned discordantly 1 time ---- 3686285 pairs aligned 0 times concordantly or discordantly; of these: 7372570 mates make up the pairs; of these: 4378334 (59.39%) aligned 0 times 1683689 (22.84%) aligned exactly 1 time 1310547 (17.78%) aligned >1 times 94.60% overall alignment rate Time searching: 01:56:17 Overall time: 01:56:17 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 56 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] 11885997 / 36411637 = 0.3264 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 04:08:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.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 04:08:47: #1 read tag files... INFO @ Tue, 30 Jun 2020 04:08:47: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 04:08:56: 1000000 INFO @ Tue, 30 Jun 2020 04:09:05: 2000000 INFO @ Tue, 30 Jun 2020 04:09:14: 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, 30 Jun 2020 04:09:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.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 04:09:17: #1 read tag files... INFO @ Tue, 30 Jun 2020 04:09:17: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 04:09:23: 4000000 INFO @ Tue, 30 Jun 2020 04:09:27: 1000000 INFO @ Tue, 30 Jun 2020 04:09:33: 5000000 INFO @ Tue, 30 Jun 2020 04:09:37: 2000000 INFO @ Tue, 30 Jun 2020 04:09:43: 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 @ Tue, 30 Jun 2020 04:09:46: 3000000 INFO @ Tue, 30 Jun 2020 04:09:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.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 04:09:47: #1 read tag files... INFO @ Tue, 30 Jun 2020 04:09:47: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 04:09:52: 7000000 INFO @ Tue, 30 Jun 2020 04:09:56: 4000000 INFO @ Tue, 30 Jun 2020 04:09:57: 1000000 INFO @ Tue, 30 Jun 2020 04:10:02: 8000000 INFO @ Tue, 30 Jun 2020 04:10:06: 2000000 INFO @ Tue, 30 Jun 2020 04:10:06: 5000000 INFO @ Tue, 30 Jun 2020 04:10:12: 9000000 INFO @ Tue, 30 Jun 2020 04:10:16: 3000000 INFO @ Tue, 30 Jun 2020 04:10:16: 6000000 INFO @ Tue, 30 Jun 2020 04:10:22: 10000000 INFO @ Tue, 30 Jun 2020 04:10:25: 4000000 INFO @ Tue, 30 Jun 2020 04:10:26: 7000000 INFO @ Tue, 30 Jun 2020 04:10:32: 11000000 INFO @ Tue, 30 Jun 2020 04:10:34: 5000000 INFO @ Tue, 30 Jun 2020 04:10:36: 8000000 INFO @ Tue, 30 Jun 2020 04:10:41: 12000000 INFO @ Tue, 30 Jun 2020 04:10:44: 6000000 INFO @ Tue, 30 Jun 2020 04:10:46: 9000000 INFO @ Tue, 30 Jun 2020 04:10:51: 13000000 INFO @ Tue, 30 Jun 2020 04:10:53: 7000000 INFO @ Tue, 30 Jun 2020 04:10:56: 10000000 INFO @ Tue, 30 Jun 2020 04:11:01: 14000000 INFO @ Tue, 30 Jun 2020 04:11:03: 8000000 INFO @ Tue, 30 Jun 2020 04:11:06: 11000000 INFO @ Tue, 30 Jun 2020 04:11:11: 15000000 INFO @ Tue, 30 Jun 2020 04:11:12: 9000000 INFO @ Tue, 30 Jun 2020 04:11:16: 12000000 INFO @ Tue, 30 Jun 2020 04:11:21: 16000000 INFO @ Tue, 30 Jun 2020 04:11:22: 10000000 INFO @ Tue, 30 Jun 2020 04:11:26: 13000000 INFO @ Tue, 30 Jun 2020 04:11:30: 17000000 INFO @ Tue, 30 Jun 2020 04:11:31: 11000000 INFO @ Tue, 30 Jun 2020 04:11:36: 14000000 INFO @ Tue, 30 Jun 2020 04:11:40: 18000000 INFO @ Tue, 30 Jun 2020 04:11:41: 12000000 INFO @ Tue, 30 Jun 2020 04:11:46: 15000000 INFO @ Tue, 30 Jun 2020 04:11:50: 19000000 INFO @ Tue, 30 Jun 2020 04:11:50: 13000000 INFO @ Tue, 30 Jun 2020 04:11:56: 16000000 INFO @ Tue, 30 Jun 2020 04:11:59: 20000000 INFO @ Tue, 30 Jun 2020 04:12:00: 14000000 INFO @ Tue, 30 Jun 2020 04:12:06: 17000000 INFO @ Tue, 30 Jun 2020 04:12:09: 21000000 INFO @ Tue, 30 Jun 2020 04:12:09: 15000000 INFO @ Tue, 30 Jun 2020 04:12:16: 18000000 INFO @ Tue, 30 Jun 2020 04:12:18: 22000000 INFO @ Tue, 30 Jun 2020 04:12:19: 16000000 INFO @ Tue, 30 Jun 2020 04:12:25: 19000000 INFO @ Tue, 30 Jun 2020 04:12:28: 23000000 INFO @ Tue, 30 Jun 2020 04:12:28: 17000000 INFO @ Tue, 30 Jun 2020 04:12:33: 20000000 INFO @ Tue, 30 Jun 2020 04:12:37: 24000000 INFO @ Tue, 30 Jun 2020 04:12:38: 18000000 INFO @ Tue, 30 Jun 2020 04:12:43: 21000000 INFO @ Tue, 30 Jun 2020 04:12:47: 25000000 INFO @ Tue, 30 Jun 2020 04:12:47: 19000000 INFO @ Tue, 30 Jun 2020 04:12:53: 22000000 INFO @ Tue, 30 Jun 2020 04:12:56: 26000000 INFO @ Tue, 30 Jun 2020 04:12:57: 20000000 INFO @ Tue, 30 Jun 2020 04:13:02: 23000000 INFO @ Tue, 30 Jun 2020 04:13:05: 27000000 INFO @ Tue, 30 Jun 2020 04:13:06: 21000000 INFO @ Tue, 30 Jun 2020 04:13:12: 24000000 INFO @ Tue, 30 Jun 2020 04:13:15: 28000000 INFO @ Tue, 30 Jun 2020 04:13:16: 22000000 INFO @ Tue, 30 Jun 2020 04:13:21: 25000000 INFO @ Tue, 30 Jun 2020 04:13:24: 29000000 INFO @ Tue, 30 Jun 2020 04:13:25: 23000000 INFO @ Tue, 30 Jun 2020 04:13:31: 26000000 INFO @ Tue, 30 Jun 2020 04:13:34: 30000000 INFO @ Tue, 30 Jun 2020 04:13:34: 24000000 INFO @ Tue, 30 Jun 2020 04:13:40: 27000000 INFO @ Tue, 30 Jun 2020 04:13:43: 25000000 INFO @ Tue, 30 Jun 2020 04:13:44: 31000000 INFO @ Tue, 30 Jun 2020 04:13:49: 28000000 INFO @ Tue, 30 Jun 2020 04:13:53: 26000000 INFO @ Tue, 30 Jun 2020 04:13:54: 32000000 INFO @ Tue, 30 Jun 2020 04:13:59: 29000000 INFO @ Tue, 30 Jun 2020 04:14:02: 27000000 INFO @ Tue, 30 Jun 2020 04:14:04: 33000000 INFO @ Tue, 30 Jun 2020 04:14:08: 30000000 INFO @ Tue, 30 Jun 2020 04:14:11: 28000000 INFO @ Tue, 30 Jun 2020 04:14:14: 34000000 INFO @ Tue, 30 Jun 2020 04:14:18: 31000000 INFO @ Tue, 30 Jun 2020 04:14:20: 29000000 INFO @ Tue, 30 Jun 2020 04:14:23: 35000000 INFO @ Tue, 30 Jun 2020 04:14:27: 32000000 INFO @ Tue, 30 Jun 2020 04:14:29: 30000000 INFO @ Tue, 30 Jun 2020 04:14:33: 36000000 INFO @ Tue, 30 Jun 2020 04:14:37: 33000000 INFO @ Tue, 30 Jun 2020 04:14:39: 31000000 INFO @ Tue, 30 Jun 2020 04:14:42: 37000000 INFO @ Tue, 30 Jun 2020 04:14:47: 34000000 INFO @ Tue, 30 Jun 2020 04:14:48: 32000000 INFO @ Tue, 30 Jun 2020 04:14:52: 38000000 INFO @ Tue, 30 Jun 2020 04:14:56: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 04:14:58: 33000000 INFO @ Tue, 30 Jun 2020 04:15:01: 39000000 INFO @ Tue, 30 Jun 2020 04:15:06: 36000000 INFO @ Tue, 30 Jun 2020 04:15:08: 34000000 INFO @ Tue, 30 Jun 2020 04:15:11: 40000000 INFO @ Tue, 30 Jun 2020 04:15:15: 37000000 INFO @ Tue, 30 Jun 2020 04:15:17: 35000000 INFO @ Tue, 30 Jun 2020 04:15:20: 41000000 INFO @ Tue, 30 Jun 2020 04:15:24: 38000000 INFO @ Tue, 30 Jun 2020 04:15:26: 36000000 INFO @ Tue, 30 Jun 2020 04:15:29: 42000000 INFO @ Tue, 30 Jun 2020 04:15:34: 39000000 INFO @ Tue, 30 Jun 2020 04:15:36: 37000000 INFO @ Tue, 30 Jun 2020 04:15:39: 43000000 INFO @ Tue, 30 Jun 2020 04:15:43: 40000000 INFO @ Tue, 30 Jun 2020 04:15:45: 38000000 INFO @ Tue, 30 Jun 2020 04:15:48: 44000000 INFO @ Tue, 30 Jun 2020 04:15:53: 41000000 INFO @ Tue, 30 Jun 2020 04:15:54: 39000000 INFO @ Tue, 30 Jun 2020 04:15:58: 45000000 INFO @ Tue, 30 Jun 2020 04:16:02: 42000000 INFO @ Tue, 30 Jun 2020 04:16:04: 40000000 INFO @ Tue, 30 Jun 2020 04:16:07: 46000000 INFO @ Tue, 30 Jun 2020 04:16:12: 43000000 INFO @ Tue, 30 Jun 2020 04:16:13: 41000000 INFO @ Tue, 30 Jun 2020 04:16:17: 47000000 INFO @ Tue, 30 Jun 2020 04:16:21: 44000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 04:16:23: 42000000 INFO @ Tue, 30 Jun 2020 04:16:26: 48000000 INFO @ Tue, 30 Jun 2020 04:16:31: 45000000 INFO @ Tue, 30 Jun 2020 04:16:32: 43000000 INFO @ Tue, 30 Jun 2020 04:16:36: 49000000 INFO @ Tue, 30 Jun 2020 04:16:40: 46000000 INFO @ Tue, 30 Jun 2020 04:16:42: 44000000 INFO @ Tue, 30 Jun 2020 04:16:45: 50000000 INFO @ Tue, 30 Jun 2020 04:16:50: 47000000 INFO @ Tue, 30 Jun 2020 04:16:51: 45000000 INFO @ Tue, 30 Jun 2020 04:16:54: 51000000 INFO @ Tue, 30 Jun 2020 04:17:00: 48000000 INFO @ Tue, 30 Jun 2020 04:17:01: 46000000 INFO @ Tue, 30 Jun 2020 04:17:04: 52000000 INFO @ Tue, 30 Jun 2020 04:17:09: 49000000 INFO @ Tue, 30 Jun 2020 04:17:10: 47000000 INFO @ Tue, 30 Jun 2020 04:17:12: #1 tag size is determined as 151 bps INFO @ Tue, 30 Jun 2020 04:17:12: #1 tag size = 151 INFO @ Tue, 30 Jun 2020 04:17:12: #1 total tags in treatment: 22708110 INFO @ Tue, 30 Jun 2020 04:17:12: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 04:17:12: #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 04:17:12: #1 tags after filtering in treatment: 21275680 INFO @ Tue, 30 Jun 2020 04:17:12: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 30 Jun 2020 04:17:12: #1 finished! INFO @ Tue, 30 Jun 2020 04:17:12: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 04:17:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 04:17:14: #2 number of paired peaks: 16 WARNING @ Tue, 30 Jun 2020 04:17:14: Too few paired peaks (16) 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 04:17:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.05_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/dm3/SRX6386754/SRX6386754.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 04:17:18: 50000000 INFO @ Tue, 30 Jun 2020 04:17:20: 48000000 INFO @ Tue, 30 Jun 2020 04:17:27: 51000000 INFO @ Tue, 30 Jun 2020 04:17:29: 49000000 INFO @ Tue, 30 Jun 2020 04:17:37: 52000000 INFO @ Tue, 30 Jun 2020 04:17:38: 50000000 INFO @ Tue, 30 Jun 2020 04:17:45: #1 tag size is determined as 151 bps INFO @ Tue, 30 Jun 2020 04:17:45: #1 tag size = 151 INFO @ Tue, 30 Jun 2020 04:17:45: #1 total tags in treatment: 22708110 INFO @ Tue, 30 Jun 2020 04:17:45: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 04:17:45: #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 04:17:46: #1 tags after filtering in treatment: 21275680 INFO @ Tue, 30 Jun 2020 04:17:46: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 30 Jun 2020 04:17:46: #1 finished! INFO @ Tue, 30 Jun 2020 04:17:46: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 04:17:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 04:17:47: #2 number of paired peaks: 16 WARNING @ Tue, 30 Jun 2020 04:17:47: Too few paired peaks (16) 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 04:17:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.10_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/SRX6386754/SRX6386754.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 04:17:48: 51000000 INFO @ Tue, 30 Jun 2020 04:17:57: 52000000 INFO @ Tue, 30 Jun 2020 04:18:05: #1 tag size is determined as 151 bps INFO @ Tue, 30 Jun 2020 04:18:05: #1 tag size = 151 INFO @ Tue, 30 Jun 2020 04:18:05: #1 total tags in treatment: 22708110 INFO @ Tue, 30 Jun 2020 04:18:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 04:18:05: #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 04:18:05: #1 tags after filtering in treatment: 21275680 INFO @ Tue, 30 Jun 2020 04:18:05: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 30 Jun 2020 04:18:05: #1 finished! INFO @ Tue, 30 Jun 2020 04:18:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 04:18:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 04:18:06: #2 number of paired peaks: 16 WARNING @ Tue, 30 Jun 2020 04:18:06: Too few paired peaks (16) 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 04:18:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.20_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/dm3/SRX6386754/SRX6386754.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX6386754/SRX6386754.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling