Job ID = 6528135 SRX = SRX474596 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:22:51 prefetch.2.10.7: 1) Downloading 'SRR1174449'... 2020-06-29T14:22:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:29:20 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:29:20 prefetch.2.10.7: 1) 'SRR1174449' was downloaded successfully 2020-06-29T14:29:20 prefetch.2.10.7: 'SRR1174449' has 0 unresolved dependencies Read 25525393 spots for SRR1174449/SRR1174449.sra Written 25525393 spots for SRR1174449/SRR1174449.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: 00:53:08 25525393 reads; of these: 25525393 (100.00%) were paired; of these: 1625239 (6.37%) aligned concordantly 0 times 16482881 (64.57%) aligned concordantly exactly 1 time 7417273 (29.06%) aligned concordantly >1 times ---- 1625239 pairs aligned concordantly 0 times; of these: 127049 (7.82%) aligned discordantly 1 time ---- 1498190 pairs aligned 0 times concordantly or discordantly; of these: 2996380 mates make up the pairs; of these: 2192039 (73.16%) aligned 0 times 527542 (17.61%) aligned exactly 1 time 276799 (9.24%) aligned >1 times 95.71% overall alignment rate Time searching: 00:53:08 Overall time: 00:53:08 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] 2260242 / 23929783 = 0.0945 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 00:50:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.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 00:50:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:50:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:51:01: 1000000 INFO @ Tue, 30 Jun 2020 00:51:06: 2000000 INFO @ Tue, 30 Jun 2020 00:51:10: 3000000 INFO @ Tue, 30 Jun 2020 00:51:15: 4000000 INFO @ Tue, 30 Jun 2020 00:51:20: 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 00:51:25: 6000000 INFO @ Tue, 30 Jun 2020 00:51:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.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 00:51:26: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:51:26: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:51:30: 7000000 INFO @ Tue, 30 Jun 2020 00:51:31: 1000000 INFO @ Tue, 30 Jun 2020 00:51:35: 8000000 INFO @ Tue, 30 Jun 2020 00:51:36: 2000000 INFO @ Tue, 30 Jun 2020 00:51:40: 9000000 INFO @ Tue, 30 Jun 2020 00:51:41: 3000000 INFO @ Tue, 30 Jun 2020 00:51:45: 10000000 INFO @ Tue, 30 Jun 2020 00:51:46: 4000000 INFO @ Tue, 30 Jun 2020 00:51:50: 11000000 INFO @ Tue, 30 Jun 2020 00:51:51: 5000000 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 00:51:55: 12000000 INFO @ Tue, 30 Jun 2020 00:51:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.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 00:51:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:51:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:51:56: 6000000 INFO @ Tue, 30 Jun 2020 00:52:00: 13000000 INFO @ Tue, 30 Jun 2020 00:52:01: 1000000 INFO @ Tue, 30 Jun 2020 00:52:01: 7000000 INFO @ Tue, 30 Jun 2020 00:52:05: 14000000 INFO @ Tue, 30 Jun 2020 00:52:06: 2000000 INFO @ Tue, 30 Jun 2020 00:52:06: 8000000 INFO @ Tue, 30 Jun 2020 00:52:10: 15000000 INFO @ Tue, 30 Jun 2020 00:52:11: 3000000 INFO @ Tue, 30 Jun 2020 00:52:12: 9000000 INFO @ Tue, 30 Jun 2020 00:52:15: 16000000 INFO @ Tue, 30 Jun 2020 00:52:16: 4000000 INFO @ Tue, 30 Jun 2020 00:52:17: 10000000 INFO @ Tue, 30 Jun 2020 00:52:20: 17000000 INFO @ Tue, 30 Jun 2020 00:52:21: 5000000 INFO @ Tue, 30 Jun 2020 00:52:22: 11000000 INFO @ Tue, 30 Jun 2020 00:52:25: 18000000 INFO @ Tue, 30 Jun 2020 00:52:26: 6000000 INFO @ Tue, 30 Jun 2020 00:52:27: 12000000 INFO @ Tue, 30 Jun 2020 00:52:30: 19000000 INFO @ Tue, 30 Jun 2020 00:52:31: 7000000 INFO @ Tue, 30 Jun 2020 00:52:32: 13000000 INFO @ Tue, 30 Jun 2020 00:52:35: 20000000 INFO @ Tue, 30 Jun 2020 00:52:36: 8000000 INFO @ Tue, 30 Jun 2020 00:52:37: 14000000 INFO @ Tue, 30 Jun 2020 00:52:40: 21000000 INFO @ Tue, 30 Jun 2020 00:52:42: 9000000 INFO @ Tue, 30 Jun 2020 00:52:42: 15000000 INFO @ Tue, 30 Jun 2020 00:52:45: 22000000 INFO @ Tue, 30 Jun 2020 00:52:47: 10000000 INFO @ Tue, 30 Jun 2020 00:52:47: 16000000 INFO @ Tue, 30 Jun 2020 00:52:50: 23000000 INFO @ Tue, 30 Jun 2020 00:52:52: 11000000 INFO @ Tue, 30 Jun 2020 00:52:52: 17000000 INFO @ Tue, 30 Jun 2020 00:52:55: 24000000 INFO @ Tue, 30 Jun 2020 00:52:57: 12000000 INFO @ Tue, 30 Jun 2020 00:52:57: 18000000 INFO @ Tue, 30 Jun 2020 00:53:00: 25000000 INFO @ Tue, 30 Jun 2020 00:53:02: 13000000 INFO @ Tue, 30 Jun 2020 00:53:02: 19000000 INFO @ Tue, 30 Jun 2020 00:53:05: 26000000 INFO @ Tue, 30 Jun 2020 00:53:07: 14000000 INFO @ Tue, 30 Jun 2020 00:53:07: 20000000 INFO @ Tue, 30 Jun 2020 00:53:11: 27000000 INFO @ Tue, 30 Jun 2020 00:53:12: 15000000 INFO @ Tue, 30 Jun 2020 00:53:13: 21000000 INFO @ Tue, 30 Jun 2020 00:53:16: 28000000 INFO @ Tue, 30 Jun 2020 00:53:17: 16000000 INFO @ Tue, 30 Jun 2020 00:53:18: 22000000 INFO @ Tue, 30 Jun 2020 00:53:21: 29000000 INFO @ Tue, 30 Jun 2020 00:53:22: 17000000 INFO @ Tue, 30 Jun 2020 00:53:23: 23000000 INFO @ Tue, 30 Jun 2020 00:53:26: 30000000 INFO @ Tue, 30 Jun 2020 00:53:27: 18000000 INFO @ Tue, 30 Jun 2020 00:53:28: 24000000 INFO @ Tue, 30 Jun 2020 00:53:31: 31000000 INFO @ Tue, 30 Jun 2020 00:53:32: 19000000 INFO @ Tue, 30 Jun 2020 00:53:33: 25000000 INFO @ Tue, 30 Jun 2020 00:53:36: 32000000 INFO @ Tue, 30 Jun 2020 00:53:37: 20000000 INFO @ Tue, 30 Jun 2020 00:53:38: 26000000 INFO @ Tue, 30 Jun 2020 00:53:41: 33000000 INFO @ Tue, 30 Jun 2020 00:53:42: 21000000 INFO @ Tue, 30 Jun 2020 00:53:44: 27000000 INFO @ Tue, 30 Jun 2020 00:53:46: 34000000 INFO @ Tue, 30 Jun 2020 00:53:47: 22000000 INFO @ Tue, 30 Jun 2020 00:53:49: 28000000 INFO @ Tue, 30 Jun 2020 00:53:51: 35000000 INFO @ Tue, 30 Jun 2020 00:53:53: 23000000 INFO @ Tue, 30 Jun 2020 00:53:54: 29000000 INFO @ Tue, 30 Jun 2020 00:53:57: 36000000 INFO @ Tue, 30 Jun 2020 00:53:58: 24000000 INFO @ Tue, 30 Jun 2020 00:53:59: 30000000 INFO @ Tue, 30 Jun 2020 00:54:02: 37000000 INFO @ Tue, 30 Jun 2020 00:54:03: 25000000 INFO @ Tue, 30 Jun 2020 00:54:04: 31000000 INFO @ Tue, 30 Jun 2020 00:54:07: 38000000 INFO @ Tue, 30 Jun 2020 00:54:08: 26000000 INFO @ Tue, 30 Jun 2020 00:54:09: 32000000 INFO @ Tue, 30 Jun 2020 00:54:12: 39000000 INFO @ Tue, 30 Jun 2020 00:54:13: 27000000 INFO @ Tue, 30 Jun 2020 00:54:14: 33000000 INFO @ Tue, 30 Jun 2020 00:54:17: 40000000 INFO @ Tue, 30 Jun 2020 00:54:18: 28000000 INFO @ Tue, 30 Jun 2020 00:54:20: 34000000 INFO @ Tue, 30 Jun 2020 00:54:22: 41000000 INFO @ Tue, 30 Jun 2020 00:54:23: 29000000 INFO @ Tue, 30 Jun 2020 00:54:25: 35000000 INFO @ Tue, 30 Jun 2020 00:54:28: 42000000 INFO @ Tue, 30 Jun 2020 00:54:28: 30000000 INFO @ Tue, 30 Jun 2020 00:54:30: 36000000 INFO @ Tue, 30 Jun 2020 00:54:33: 43000000 INFO @ Tue, 30 Jun 2020 00:54:34: 31000000 INFO @ Tue, 30 Jun 2020 00:54:35: 37000000 INFO @ Tue, 30 Jun 2020 00:54:38: 44000000 INFO @ Tue, 30 Jun 2020 00:54:39: 32000000 INFO @ Tue, 30 Jun 2020 00:54:40: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:54:40: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:54:40: #1 total tags in treatment: 21641842 INFO @ Tue, 30 Jun 2020 00:54:40: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:54:40: #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 00:54:40: #1 tags after filtering in treatment: 18245654 INFO @ Tue, 30 Jun 2020 00:54:40: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 30 Jun 2020 00:54:40: #1 finished! INFO @ Tue, 30 Jun 2020 00:54:40: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:54:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:54:40: 38000000 INFO @ Tue, 30 Jun 2020 00:54:41: #2 number of paired peaks: 23 WARNING @ Tue, 30 Jun 2020 00:54:41: Too few paired peaks (23) 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 00:54:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.05_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/SRX474596/SRX474596.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:54:44: 33000000 INFO @ Tue, 30 Jun 2020 00:54:46: 39000000 INFO @ Tue, 30 Jun 2020 00:54:49: 34000000 INFO @ Tue, 30 Jun 2020 00:54:51: 40000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:54:54: 35000000 INFO @ Tue, 30 Jun 2020 00:54:56: 41000000 INFO @ Tue, 30 Jun 2020 00:54:59: 36000000 INFO @ Tue, 30 Jun 2020 00:55:01: 42000000 INFO @ Tue, 30 Jun 2020 00:55:04: 37000000 INFO @ Tue, 30 Jun 2020 00:55:06: 43000000 INFO @ Tue, 30 Jun 2020 00:55:09: 38000000 INFO @ Tue, 30 Jun 2020 00:55:11: 44000000 INFO @ Tue, 30 Jun 2020 00:55:13: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:55:13: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:55:13: #1 total tags in treatment: 21641842 INFO @ Tue, 30 Jun 2020 00:55:13: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:55:13: #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 00:55:14: #1 tags after filtering in treatment: 18245654 INFO @ Tue, 30 Jun 2020 00:55:14: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 30 Jun 2020 00:55:14: #1 finished! INFO @ Tue, 30 Jun 2020 00:55:14: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:55:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:55:14: 39000000 INFO @ Tue, 30 Jun 2020 00:55:15: #2 number of paired peaks: 23 WARNING @ Tue, 30 Jun 2020 00:55:15: Too few paired peaks (23) 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 00:55:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.10_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/SRX474596/SRX474596.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:55:19: 40000000 INFO @ Tue, 30 Jun 2020 00:55:24: 41000000 INFO @ Tue, 30 Jun 2020 00:55:29: 42000000 INFO @ Tue, 30 Jun 2020 00:55:34: 43000000 INFO @ Tue, 30 Jun 2020 00:55:39: 44000000 INFO @ Tue, 30 Jun 2020 00:55:41: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:55:41: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:55:41: #1 total tags in treatment: 21641842 INFO @ Tue, 30 Jun 2020 00:55:41: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:55:41: #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 00:55:41: #1 tags after filtering in treatment: 18245654 INFO @ Tue, 30 Jun 2020 00:55:41: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 30 Jun 2020 00:55:41: #1 finished! INFO @ Tue, 30 Jun 2020 00:55:41: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:55:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:55:42: #2 number of paired peaks: 23 WARNING @ Tue, 30 Jun 2020 00:55:42: Too few paired peaks (23) 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 00:55:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.20_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/SRX474596/SRX474596.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474596/SRX474596.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。