Job ID = 6528130 SRX = SRX474581 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:23:36 prefetch.2.10.7: 1) Downloading 'SRR1174434'... 2020-06-29T14:23:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:27:33 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:27:33 prefetch.2.10.7: 1) 'SRR1174434' was downloaded successfully 2020-06-29T14:27:33 prefetch.2.10.7: 'SRR1174434' has 0 unresolved dependencies Read 17501153 spots for SRR1174434/SRR1174434.sra Written 17501153 spots for SRR1174434/SRR1174434.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:31:08 17501153 reads; of these: 17501153 (100.00%) were paired; of these: 1059975 (6.06%) aligned concordantly 0 times 12143968 (69.39%) aligned concordantly exactly 1 time 4297210 (24.55%) aligned concordantly >1 times ---- 1059975 pairs aligned concordantly 0 times; of these: 50482 (4.76%) aligned discordantly 1 time ---- 1009493 pairs aligned 0 times concordantly or discordantly; of these: 2018986 mates make up the pairs; of these: 1593436 (78.92%) aligned 0 times 305439 (15.13%) aligned exactly 1 time 120111 (5.95%) aligned >1 times 95.45% overall alignment rate Time searching: 00:31:09 Overall time: 00:31:09 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_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] 2685210 / 16461320 = 0.1631 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 00:18:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.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 00:18:10: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:18:10: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:18:15: 1000000 INFO @ Tue, 30 Jun 2020 00:18:21: 2000000 INFO @ Tue, 30 Jun 2020 00:18:27: 3000000 INFO @ Tue, 30 Jun 2020 00:18:32: 4000000 INFO @ Tue, 30 Jun 2020 00:18:38: 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 00:18:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.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 00:18:40: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:18:40: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:18:43: 6000000 INFO @ Tue, 30 Jun 2020 00:18:46: 1000000 INFO @ Tue, 30 Jun 2020 00:18:49: 7000000 INFO @ Tue, 30 Jun 2020 00:18:52: 2000000 INFO @ Tue, 30 Jun 2020 00:18:55: 8000000 INFO @ Tue, 30 Jun 2020 00:18:58: 3000000 INFO @ Tue, 30 Jun 2020 00:19:01: 9000000 INFO @ Tue, 30 Jun 2020 00:19:04: 4000000 INFO @ Tue, 30 Jun 2020 00:19:07: 10000000 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 00:19:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.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 00:19:10: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:19:10: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:19:11: 5000000 INFO @ Tue, 30 Jun 2020 00:19:13: 11000000 INFO @ Tue, 30 Jun 2020 00:19:16: 1000000 INFO @ Tue, 30 Jun 2020 00:19:17: 6000000 INFO @ Tue, 30 Jun 2020 00:19:19: 12000000 INFO @ Tue, 30 Jun 2020 00:19:22: 2000000 INFO @ Tue, 30 Jun 2020 00:19:22: 7000000 INFO @ Tue, 30 Jun 2020 00:19:24: 13000000 INFO @ Tue, 30 Jun 2020 00:19:28: 3000000 INFO @ Tue, 30 Jun 2020 00:19:29: 8000000 INFO @ Tue, 30 Jun 2020 00:19:31: 14000000 INFO @ Tue, 30 Jun 2020 00:19:35: 4000000 INFO @ Tue, 30 Jun 2020 00:19:35: 9000000 INFO @ Tue, 30 Jun 2020 00:19:36: 15000000 INFO @ Tue, 30 Jun 2020 00:19:41: 10000000 INFO @ Tue, 30 Jun 2020 00:19:41: 5000000 INFO @ Tue, 30 Jun 2020 00:19:42: 16000000 INFO @ Tue, 30 Jun 2020 00:19:46: 11000000 INFO @ Tue, 30 Jun 2020 00:19:47: 6000000 INFO @ Tue, 30 Jun 2020 00:19:48: 17000000 INFO @ Tue, 30 Jun 2020 00:19:52: 12000000 INFO @ Tue, 30 Jun 2020 00:19:53: 7000000 INFO @ Tue, 30 Jun 2020 00:19:54: 18000000 INFO @ Tue, 30 Jun 2020 00:19:58: 13000000 INFO @ Tue, 30 Jun 2020 00:19:59: 8000000 INFO @ Tue, 30 Jun 2020 00:19:59: 19000000 INFO @ Tue, 30 Jun 2020 00:20:04: 14000000 INFO @ Tue, 30 Jun 2020 00:20:05: 20000000 INFO @ Tue, 30 Jun 2020 00:20:05: 9000000 INFO @ Tue, 30 Jun 2020 00:20:11: 15000000 INFO @ Tue, 30 Jun 2020 00:20:11: 21000000 INFO @ Tue, 30 Jun 2020 00:20:11: 10000000 INFO @ Tue, 30 Jun 2020 00:20:16: 16000000 INFO @ Tue, 30 Jun 2020 00:20:17: 22000000 INFO @ Tue, 30 Jun 2020 00:20:17: 11000000 INFO @ Tue, 30 Jun 2020 00:20:22: 17000000 INFO @ Tue, 30 Jun 2020 00:20:22: 23000000 INFO @ Tue, 30 Jun 2020 00:20:23: 12000000 INFO @ Tue, 30 Jun 2020 00:20:28: 18000000 INFO @ Tue, 30 Jun 2020 00:20:28: 24000000 INFO @ Tue, 30 Jun 2020 00:20:29: 13000000 INFO @ Tue, 30 Jun 2020 00:20:33: 19000000 INFO @ Tue, 30 Jun 2020 00:20:34: 25000000 INFO @ Tue, 30 Jun 2020 00:20:35: 14000000 INFO @ Tue, 30 Jun 2020 00:20:39: 20000000 INFO @ Tue, 30 Jun 2020 00:20:39: 26000000 INFO @ Tue, 30 Jun 2020 00:20:41: 15000000 INFO @ Tue, 30 Jun 2020 00:20:45: 21000000 INFO @ Tue, 30 Jun 2020 00:20:45: 27000000 INFO @ Tue, 30 Jun 2020 00:20:46: 16000000 INFO @ Tue, 30 Jun 2020 00:20:50: 22000000 INFO @ Tue, 30 Jun 2020 00:20:51: 28000000 INFO @ Tue, 30 Jun 2020 00:20:51: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:20:51: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:20:51: #1 total tags in treatment: 13758780 INFO @ Tue, 30 Jun 2020 00:20:51: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:20:51: #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 00:20:51: #1 tags after filtering in treatment: 12177248 INFO @ Tue, 30 Jun 2020 00:20:51: #1 Redundant rate of treatment: 0.11 INFO @ Tue, 30 Jun 2020 00:20:51: #1 finished! INFO @ Tue, 30 Jun 2020 00:20:51: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:20:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:20:52: #2 number of paired peaks: 55 WARNING @ Tue, 30 Jun 2020 00:20:52: Too few paired peaks (55) 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 00:20:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.05_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/SRX474581/SRX474581.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:20:52: 17000000 INFO @ Tue, 30 Jun 2020 00:20:56: 23000000 INFO @ Tue, 30 Jun 2020 00:20:58: 18000000 INFO @ Tue, 30 Jun 2020 00:21:02: 24000000 INFO @ Tue, 30 Jun 2020 00:21:03: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:21:07: 25000000 INFO @ Tue, 30 Jun 2020 00:21:09: 20000000 INFO @ Tue, 30 Jun 2020 00:21:13: 26000000 INFO @ Tue, 30 Jun 2020 00:21:15: 21000000 INFO @ Tue, 30 Jun 2020 00:21:18: 27000000 INFO @ Tue, 30 Jun 2020 00:21:20: 22000000 INFO @ Tue, 30 Jun 2020 00:21:24: 28000000 INFO @ Tue, 30 Jun 2020 00:21:24: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:21:24: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:21:24: #1 total tags in treatment: 13758780 INFO @ Tue, 30 Jun 2020 00:21:24: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:21:24: #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 00:21:24: #1 tags after filtering in treatment: 12177248 INFO @ Tue, 30 Jun 2020 00:21:24: #1 Redundant rate of treatment: 0.11 INFO @ Tue, 30 Jun 2020 00:21:24: #1 finished! INFO @ Tue, 30 Jun 2020 00:21:24: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:21:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:21:25: #2 number of paired peaks: 55 WARNING @ Tue, 30 Jun 2020 00:21:25: Too few paired peaks (55) 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 00:21:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.10_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/SRX474581/SRX474581.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:21:26: 23000000 INFO @ Tue, 30 Jun 2020 00:21:31: 24000000 INFO @ Tue, 30 Jun 2020 00:21:37: 25000000 INFO @ Tue, 30 Jun 2020 00:21:42: 26000000 INFO @ Tue, 30 Jun 2020 00:21:47: 27000000 INFO @ Tue, 30 Jun 2020 00:21:52: 28000000 INFO @ Tue, 30 Jun 2020 00:21:53: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:21:53: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:21:53: #1 total tags in treatment: 13758780 INFO @ Tue, 30 Jun 2020 00:21:53: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:21:53: #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 00:21:53: #1 tags after filtering in treatment: 12177248 INFO @ Tue, 30 Jun 2020 00:21:53: #1 Redundant rate of treatment: 0.11 INFO @ Tue, 30 Jun 2020 00:21:53: #1 finished! INFO @ Tue, 30 Jun 2020 00:21:53: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:21:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:21:54: #2 number of paired peaks: 55 WARNING @ Tue, 30 Jun 2020 00:21:54: Too few paired peaks (55) 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 00:21:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.20_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/SRX474581/SRX474581.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX474581/SRX474581.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。