Job ID = 6528381 SRX = SRX5462366 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:55:43 prefetch.2.10.7: 1) Downloading 'SRR8666110'... 2020-06-29T14:55:43 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:58:39 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:58:39 prefetch.2.10.7: 1) 'SRR8666110' was downloaded successfully 2020-06-29T14:58:39 prefetch.2.10.7: 'SRR8666110' has 0 unresolved dependencies Read 27643293 spots for SRR8666110/SRR8666110.sra Written 27643293 spots for SRR8666110/SRR8666110.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: 00:54:55 27643293 reads; of these: 27643293 (100.00%) were paired; of these: 3958853 (14.32%) aligned concordantly 0 times 17541245 (63.46%) aligned concordantly exactly 1 time 6143195 (22.22%) aligned concordantly >1 times ---- 3958853 pairs aligned concordantly 0 times; of these: 1254909 (31.70%) aligned discordantly 1 time ---- 2703944 pairs aligned 0 times concordantly or discordantly; of these: 5407888 mates make up the pairs; of these: 3642579 (67.36%) aligned 0 times 688209 (12.73%) aligned exactly 1 time 1077100 (19.92%) aligned >1 times 93.41% overall alignment rate Time searching: 00:54:55 Overall time: 00:54:55 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 24 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] 2447523 / 24792340 = 0.0987 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 01:31:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.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 01:31:15: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:31:15: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:31:20: 1000000 INFO @ Tue, 30 Jun 2020 01:31:25: 2000000 INFO @ Tue, 30 Jun 2020 01:31:30: 3000000 INFO @ Tue, 30 Jun 2020 01:31:36: 4000000 INFO @ Tue, 30 Jun 2020 01:31:41: 5000000 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 01:31:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.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 01:31:45: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:31:45: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:31:46: 6000000 INFO @ Tue, 30 Jun 2020 01:31:51: 1000000 INFO @ Tue, 30 Jun 2020 01:31:52: 7000000 INFO @ Tue, 30 Jun 2020 01:31:58: 8000000 INFO @ Tue, 30 Jun 2020 01:31:58: 2000000 INFO @ Tue, 30 Jun 2020 01:32:03: 9000000 INFO @ Tue, 30 Jun 2020 01:32:05: 3000000 INFO @ Tue, 30 Jun 2020 01:32:09: 10000000 INFO @ Tue, 30 Jun 2020 01:32:11: 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 01:32:15: 11000000 INFO @ Tue, 30 Jun 2020 01:32:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.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 01:32:15: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:32:15: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:32:18: 5000000 INFO @ Tue, 30 Jun 2020 01:32:21: 12000000 INFO @ Tue, 30 Jun 2020 01:32:21: 1000000 INFO @ Tue, 30 Jun 2020 01:32:25: 6000000 INFO @ Tue, 30 Jun 2020 01:32:26: 13000000 INFO @ Tue, 30 Jun 2020 01:32:27: 2000000 INFO @ Tue, 30 Jun 2020 01:32:31: 7000000 INFO @ Tue, 30 Jun 2020 01:32:32: 14000000 INFO @ Tue, 30 Jun 2020 01:32:33: 3000000 INFO @ Tue, 30 Jun 2020 01:32:38: 15000000 INFO @ Tue, 30 Jun 2020 01:32:38: 8000000 INFO @ Tue, 30 Jun 2020 01:32:39: 4000000 INFO @ Tue, 30 Jun 2020 01:32:44: 16000000 INFO @ Tue, 30 Jun 2020 01:32:45: 5000000 INFO @ Tue, 30 Jun 2020 01:32:45: 9000000 INFO @ Tue, 30 Jun 2020 01:32:49: 17000000 INFO @ Tue, 30 Jun 2020 01:32:51: 6000000 INFO @ Tue, 30 Jun 2020 01:32:51: 10000000 INFO @ Tue, 30 Jun 2020 01:32:55: 18000000 INFO @ Tue, 30 Jun 2020 01:32:56: 7000000 INFO @ Tue, 30 Jun 2020 01:32:58: 11000000 INFO @ Tue, 30 Jun 2020 01:33:01: 19000000 INFO @ Tue, 30 Jun 2020 01:33:02: 8000000 INFO @ Tue, 30 Jun 2020 01:33:05: 12000000 INFO @ Tue, 30 Jun 2020 01:33:07: 20000000 INFO @ Tue, 30 Jun 2020 01:33:08: 9000000 INFO @ Tue, 30 Jun 2020 01:33:11: 13000000 INFO @ Tue, 30 Jun 2020 01:33:13: 21000000 INFO @ Tue, 30 Jun 2020 01:33:14: 10000000 INFO @ Tue, 30 Jun 2020 01:33:18: 14000000 INFO @ Tue, 30 Jun 2020 01:33:19: 22000000 INFO @ Tue, 30 Jun 2020 01:33:20: 11000000 INFO @ Tue, 30 Jun 2020 01:33:24: 23000000 INFO @ Tue, 30 Jun 2020 01:33:25: 15000000 INFO @ Tue, 30 Jun 2020 01:33:26: 12000000 INFO @ Tue, 30 Jun 2020 01:33:30: 24000000 INFO @ Tue, 30 Jun 2020 01:33:31: 16000000 INFO @ Tue, 30 Jun 2020 01:33:32: 13000000 INFO @ Tue, 30 Jun 2020 01:33:36: 25000000 INFO @ Tue, 30 Jun 2020 01:33:37: 14000000 INFO @ Tue, 30 Jun 2020 01:33:38: 17000000 INFO @ Tue, 30 Jun 2020 01:33:42: 26000000 INFO @ Tue, 30 Jun 2020 01:33:43: 15000000 INFO @ Tue, 30 Jun 2020 01:33:45: 18000000 INFO @ Tue, 30 Jun 2020 01:33:47: 27000000 INFO @ Tue, 30 Jun 2020 01:33:49: 16000000 INFO @ Tue, 30 Jun 2020 01:33:52: 19000000 INFO @ Tue, 30 Jun 2020 01:33:53: 28000000 INFO @ Tue, 30 Jun 2020 01:33:55: 17000000 INFO @ Tue, 30 Jun 2020 01:33:59: 20000000 INFO @ Tue, 30 Jun 2020 01:33:59: 29000000 INFO @ Tue, 30 Jun 2020 01:34:01: 18000000 INFO @ Tue, 30 Jun 2020 01:34:05: 30000000 INFO @ Tue, 30 Jun 2020 01:34:05: 21000000 INFO @ Tue, 30 Jun 2020 01:34:07: 19000000 INFO @ Tue, 30 Jun 2020 01:34:11: 31000000 INFO @ Tue, 30 Jun 2020 01:34:12: 22000000 INFO @ Tue, 30 Jun 2020 01:34:13: 20000000 INFO @ Tue, 30 Jun 2020 01:34:17: 32000000 INFO @ Tue, 30 Jun 2020 01:34:19: 21000000 INFO @ Tue, 30 Jun 2020 01:34:19: 23000000 INFO @ Tue, 30 Jun 2020 01:34:22: 33000000 INFO @ Tue, 30 Jun 2020 01:34:24: 22000000 INFO @ Tue, 30 Jun 2020 01:34:26: 24000000 INFO @ Tue, 30 Jun 2020 01:34:28: 34000000 INFO @ Tue, 30 Jun 2020 01:34:30: 23000000 INFO @ Tue, 30 Jun 2020 01:34:33: 25000000 INFO @ Tue, 30 Jun 2020 01:34:34: 35000000 INFO @ Tue, 30 Jun 2020 01:34:36: 24000000 INFO @ Tue, 30 Jun 2020 01:34:40: 26000000 INFO @ Tue, 30 Jun 2020 01:34:40: 36000000 INFO @ Tue, 30 Jun 2020 01:34:42: 25000000 INFO @ Tue, 30 Jun 2020 01:34:46: 37000000 INFO @ Tue, 30 Jun 2020 01:34:47: 27000000 INFO @ Tue, 30 Jun 2020 01:34:48: 26000000 INFO @ Tue, 30 Jun 2020 01:34:52: 38000000 INFO @ Tue, 30 Jun 2020 01:34:54: 27000000 INFO @ Tue, 30 Jun 2020 01:34:54: 28000000 INFO @ Tue, 30 Jun 2020 01:34:58: 39000000 INFO @ Tue, 30 Jun 2020 01:34:59: 28000000 INFO @ Tue, 30 Jun 2020 01:35:01: 29000000 INFO @ Tue, 30 Jun 2020 01:35:04: 40000000 INFO @ Tue, 30 Jun 2020 01:35:05: 29000000 INFO @ Tue, 30 Jun 2020 01:35:08: 30000000 INFO @ Tue, 30 Jun 2020 01:35:10: 41000000 INFO @ Tue, 30 Jun 2020 01:35:11: 30000000 INFO @ Tue, 30 Jun 2020 01:35:14: 31000000 INFO @ Tue, 30 Jun 2020 01:35:16: 42000000 INFO @ Tue, 30 Jun 2020 01:35:17: 31000000 INFO @ Tue, 30 Jun 2020 01:35:21: 32000000 INFO @ Tue, 30 Jun 2020 01:35:22: 43000000 INFO @ Tue, 30 Jun 2020 01:35:23: 32000000 INFO @ Tue, 30 Jun 2020 01:35:27: 44000000 INFO @ Tue, 30 Jun 2020 01:35:28: 33000000 INFO @ Tue, 30 Jun 2020 01:35:29: 33000000 INFO @ Tue, 30 Jun 2020 01:35:33: 45000000 INFO @ Tue, 30 Jun 2020 01:35:35: 34000000 INFO @ Tue, 30 Jun 2020 01:35:36: 34000000 INFO @ Tue, 30 Jun 2020 01:35:39: 46000000 INFO @ Tue, 30 Jun 2020 01:35:42: 35000000 INFO @ Tue, 30 Jun 2020 01:35:43: 35000000 INFO @ Tue, 30 Jun 2020 01:35:43: #1 tag size is determined as 79 bps INFO @ Tue, 30 Jun 2020 01:35:43: #1 tag size = 79 INFO @ Tue, 30 Jun 2020 01:35:43: #1 total tags in treatment: 21369669 INFO @ Tue, 30 Jun 2020 01:35:43: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:35:43: #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 01:35:44: #1 tags after filtering in treatment: 19723954 INFO @ Tue, 30 Jun 2020 01:35:44: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 30 Jun 2020 01:35:44: #1 finished! INFO @ Tue, 30 Jun 2020 01:35:44: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:35:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:35:45: #2 number of paired peaks: 63 WARNING @ Tue, 30 Jun 2020 01:35:45: Too few paired peaks (63) 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 01:35:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.05_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/SRX5462366/SRX5462366.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:35:49: 36000000 INFO @ Tue, 30 Jun 2020 01:35:49: 36000000 INFO @ Tue, 30 Jun 2020 01:35:55: 37000000 INFO @ Tue, 30 Jun 2020 01:35:56: 37000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:36:02: 38000000 INFO @ Tue, 30 Jun 2020 01:36:03: 38000000 INFO @ Tue, 30 Jun 2020 01:36:09: 39000000 INFO @ Tue, 30 Jun 2020 01:36:10: 39000000 INFO @ Tue, 30 Jun 2020 01:36:16: 40000000 INFO @ Tue, 30 Jun 2020 01:36:16: 40000000 INFO @ Tue, 30 Jun 2020 01:36:22: 41000000 INFO @ Tue, 30 Jun 2020 01:36:23: 41000000 INFO @ Tue, 30 Jun 2020 01:36:29: 42000000 INFO @ Tue, 30 Jun 2020 01:36:30: 42000000 INFO @ Tue, 30 Jun 2020 01:36:36: 43000000 INFO @ Tue, 30 Jun 2020 01:36:37: 43000000 INFO @ Tue, 30 Jun 2020 01:36:43: 44000000 INFO @ Tue, 30 Jun 2020 01:36:44: 44000000 INFO @ Tue, 30 Jun 2020 01:36:50: 45000000 INFO @ Tue, 30 Jun 2020 01:36:50: 45000000 INFO @ Tue, 30 Jun 2020 01:36:56: 46000000 INFO @ Tue, 30 Jun 2020 01:36:57: 46000000 INFO @ Tue, 30 Jun 2020 01:37:02: #1 tag size is determined as 79 bps INFO @ Tue, 30 Jun 2020 01:37:02: #1 tag size = 79 INFO @ Tue, 30 Jun 2020 01:37:02: #1 total tags in treatment: 21369669 INFO @ Tue, 30 Jun 2020 01:37:02: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:37:02: #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 01:37:02: #1 tags after filtering in treatment: 19723954 INFO @ Tue, 30 Jun 2020 01:37:02: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 30 Jun 2020 01:37:02: #1 finished! INFO @ Tue, 30 Jun 2020 01:37:02: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:37:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:37:02: #1 tag size is determined as 79 bps INFO @ Tue, 30 Jun 2020 01:37:02: #1 tag size = 79 INFO @ Tue, 30 Jun 2020 01:37:02: #1 total tags in treatment: 21369669 INFO @ Tue, 30 Jun 2020 01:37:02: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:37:02: #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 01:37:03: #1 tags after filtering in treatment: 19723954 INFO @ Tue, 30 Jun 2020 01:37:03: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 30 Jun 2020 01:37:03: #1 finished! INFO @ Tue, 30 Jun 2020 01:37:03: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:37:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:37:03: #2 number of paired peaks: 63 WARNING @ Tue, 30 Jun 2020 01:37:03: Too few paired peaks (63) 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 01:37:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.10_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/SRX5462366/SRX5462366.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:37:04: #2 number of paired peaks: 63 WARNING @ Tue, 30 Jun 2020 01:37:04: Too few paired peaks (63) 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 01:37:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.20_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/SRX5462366/SRX5462366.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5462366/SRX5462366.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。