Job ID = 16439606 SRX = SRX11548839 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10808878 spots for SRR15243010/SRR15243010.sra Written 10808878 spots for SRR15243010/SRR15243010.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439846 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:35:44 10808878 reads; of these: 10808878 (100.00%) were paired; of these: 983093 (9.10%) aligned concordantly 0 times 7666961 (70.93%) aligned concordantly exactly 1 time 2158824 (19.97%) aligned concordantly >1 times ---- 983093 pairs aligned concordantly 0 times; of these: 267780 (27.24%) aligned discordantly 1 time ---- 715313 pairs aligned 0 times concordantly or discordantly; of these: 1430626 mates make up the pairs; of these: 761421 (53.22%) aligned 0 times 297118 (20.77%) aligned exactly 1 time 372087 (26.01%) aligned >1 times 96.48% overall alignment rate Time searching: 00:35:46 Overall time: 00:35:46 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 12 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] 411227 / 10047360 = 0.0409 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:26:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.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, 02 Aug 2022 16:26:19: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:26:19: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:26:32: 1000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:26:46: 2000000 INFO @ Tue, 02 Aug 2022 16:26:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.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, 02 Aug 2022 16:26:47: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:26:47: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:26:57: 1000000 INFO @ Tue, 02 Aug 2022 16:27:00: 3000000 INFO @ Tue, 02 Aug 2022 16:27:09: 2000000 INFO @ Tue, 02 Aug 2022 16:27:13: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 16:27:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.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, 02 Aug 2022 16:27:17: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:27:17: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:27:20: 3000000 INFO @ Tue, 02 Aug 2022 16:27:28: 5000000 INFO @ Tue, 02 Aug 2022 16:27:31: 1000000 INFO @ Tue, 02 Aug 2022 16:27:33: 4000000 INFO @ Tue, 02 Aug 2022 16:27:42: 6000000 INFO @ Tue, 02 Aug 2022 16:27:46: 2000000 INFO @ Tue, 02 Aug 2022 16:27:46: 5000000 INFO @ Tue, 02 Aug 2022 16:27:57: 7000000 INFO @ Tue, 02 Aug 2022 16:28:00: 6000000 INFO @ Tue, 02 Aug 2022 16:28:00: 3000000 INFO @ Tue, 02 Aug 2022 16:28:10: 8000000 INFO @ Tue, 02 Aug 2022 16:28:14: 4000000 INFO @ Tue, 02 Aug 2022 16:28:14: 7000000 INFO @ Tue, 02 Aug 2022 16:28:24: 9000000 INFO @ Tue, 02 Aug 2022 16:28:28: 5000000 INFO @ Tue, 02 Aug 2022 16:28:28: 8000000 INFO @ Tue, 02 Aug 2022 16:28:38: 10000000 INFO @ Tue, 02 Aug 2022 16:28:41: 6000000 INFO @ Tue, 02 Aug 2022 16:28:42: 9000000 INFO @ Tue, 02 Aug 2022 16:28:52: 11000000 INFO @ Tue, 02 Aug 2022 16:28:55: 10000000 INFO @ Tue, 02 Aug 2022 16:28:55: 7000000 INFO @ Tue, 02 Aug 2022 16:29:07: 12000000 INFO @ Tue, 02 Aug 2022 16:29:09: 11000000 INFO @ Tue, 02 Aug 2022 16:29:10: 8000000 INFO @ Tue, 02 Aug 2022 16:29:22: 13000000 INFO @ Tue, 02 Aug 2022 16:29:22: 12000000 INFO @ Tue, 02 Aug 2022 16:29:24: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:29:35: 13000000 INFO @ Tue, 02 Aug 2022 16:29:37: 14000000 INFO @ Tue, 02 Aug 2022 16:29:39: 10000000 INFO @ Tue, 02 Aug 2022 16:29:49: 14000000 INFO @ Tue, 02 Aug 2022 16:29:52: 15000000 INFO @ Tue, 02 Aug 2022 16:29:53: 11000000 INFO @ Tue, 02 Aug 2022 16:30:03: 15000000 INFO @ Tue, 02 Aug 2022 16:30:05: 12000000 INFO @ Tue, 02 Aug 2022 16:30:08: 16000000 INFO @ Tue, 02 Aug 2022 16:30:17: 16000000 INFO @ Tue, 02 Aug 2022 16:30:19: 13000000 INFO @ Tue, 02 Aug 2022 16:30:22: 17000000 INFO @ Tue, 02 Aug 2022 16:30:32: 17000000 INFO @ Tue, 02 Aug 2022 16:30:34: 14000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:30:37: 18000000 INFO @ Tue, 02 Aug 2022 16:30:47: 18000000 INFO @ Tue, 02 Aug 2022 16:30:48: 15000000 INFO @ Tue, 02 Aug 2022 16:30:52: 19000000 INFO @ Tue, 02 Aug 2022 16:31:01: 19000000 INFO @ Tue, 02 Aug 2022 16:31:02: 16000000 INFO @ Tue, 02 Aug 2022 16:31:06: 20000000 INFO @ Tue, 02 Aug 2022 16:31:07: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:31:07: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:31:07: #1 total tags in treatment: 9416272 INFO @ Tue, 02 Aug 2022 16:31:07: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:31:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:31:07: #1 tags after filtering in treatment: 9021156 INFO @ Tue, 02 Aug 2022 16:31:07: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 16:31:07: #1 finished! INFO @ Tue, 02 Aug 2022 16:31:07: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:31:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:31:08: #2 number of paired peaks: 69 WARNING @ Tue, 02 Aug 2022 16:31:08: Too few paired peaks (69) 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, 02 Aug 2022 16:31:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.05_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/SRX11548839/SRX11548839.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:31:15: 20000000 INFO @ Tue, 02 Aug 2022 16:31:15: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:31:15: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:31:15: #1 total tags in treatment: 9416272 INFO @ Tue, 02 Aug 2022 16:31:15: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:31:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:31:16: #1 tags after filtering in treatment: 9021156 INFO @ Tue, 02 Aug 2022 16:31:16: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 16:31:16: #1 finished! INFO @ Tue, 02 Aug 2022 16:31:16: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:31:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:31:16: #2 number of paired peaks: 69 WARNING @ Tue, 02 Aug 2022 16:31:16: Too few paired peaks (69) 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, 02 Aug 2022 16:31:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.10_peaks.narrowPeak: No such file or directory INFO @ Tue, 02 Aug 2022 16:31:17: 17000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:31:31: 18000000 INFO @ Tue, 02 Aug 2022 16:31:43: 19000000 INFO @ Tue, 02 Aug 2022 16:31:56: 20000000 INFO @ Tue, 02 Aug 2022 16:31:56: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:31:56: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:31:56: #1 total tags in treatment: 9416272 INFO @ Tue, 02 Aug 2022 16:31:56: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:31:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 16:31:56: #1 tags after filtering in treatment: 9021156 INFO @ Tue, 02 Aug 2022 16:31:56: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 16:31:56: #1 finished! INFO @ Tue, 02 Aug 2022 16:31:56: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:31:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:31:57: #2 number of paired peaks: 69 WARNING @ Tue, 02 Aug 2022 16:31:57: Too few paired peaks (69) 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, 02 Aug 2022 16:31:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.20_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/SRX11548839/SRX11548839.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548839/SRX11548839.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling