Job ID = 16439616 SRX = SRX11548845 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11189160 spots for SRR15243016/SRR15243016.sra Written 11189160 spots for SRR15243016/SRR15243016.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439762 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:22:09 11189160 reads; of these: 11189160 (100.00%) were paired; of these: 1261562 (11.27%) aligned concordantly 0 times 8370633 (74.81%) aligned concordantly exactly 1 time 1556965 (13.91%) aligned concordantly >1 times ---- 1261562 pairs aligned concordantly 0 times; of these: 99201 (7.86%) aligned discordantly 1 time ---- 1162361 pairs aligned 0 times concordantly or discordantly; of these: 2324722 mates make up the pairs; of these: 2027445 (87.21%) aligned 0 times 199682 (8.59%) aligned exactly 1 time 97595 (4.20%) aligned >1 times 90.94% overall alignment rate Time searching: 00:22:09 Overall time: 00:22:09 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 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] 521329 / 9920639 = 0.0525 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 16:14:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.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 16:14:24: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:14:24: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:14:31: 1000000 INFO @ Tue, 02 Aug 2022 16:14:38: 2000000 INFO @ Tue, 02 Aug 2022 16:14:45: 3000000 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 16:14:52: 4000000 INFO @ Tue, 02 Aug 2022 16:14:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.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 16:14:53: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:14:53: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:14:59: 5000000 INFO @ Tue, 02 Aug 2022 16:15:01: 1000000 INFO @ Tue, 02 Aug 2022 16:15:07: 6000000 INFO @ Tue, 02 Aug 2022 16:15:08: 2000000 INFO @ Tue, 02 Aug 2022 16:15:14: 7000000 INFO @ Tue, 02 Aug 2022 16:15:16: 3000000 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 16:15:22: 8000000 INFO @ Tue, 02 Aug 2022 16:15:23: 4000000 INFO @ Tue, 02 Aug 2022 16:15:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.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 16:15:23: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:15:23: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:15:30: 9000000 INFO @ Tue, 02 Aug 2022 16:15:31: 5000000 INFO @ Tue, 02 Aug 2022 16:15:34: 1000000 INFO @ Tue, 02 Aug 2022 16:15:39: 6000000 INFO @ Tue, 02 Aug 2022 16:15:40: 10000000 INFO @ Tue, 02 Aug 2022 16:15:44: 2000000 INFO @ Tue, 02 Aug 2022 16:15:46: 7000000 INFO @ Tue, 02 Aug 2022 16:15:50: 11000000 INFO @ Tue, 02 Aug 2022 16:15:54: 8000000 INFO @ Tue, 02 Aug 2022 16:15:55: 3000000 INFO @ Tue, 02 Aug 2022 16:15:59: 12000000 INFO @ Tue, 02 Aug 2022 16:16:03: 9000000 INFO @ Tue, 02 Aug 2022 16:16:05: 4000000 INFO @ Tue, 02 Aug 2022 16:16:08: 13000000 INFO @ Tue, 02 Aug 2022 16:16:11: 10000000 INFO @ Tue, 02 Aug 2022 16:16:16: 5000000 INFO @ Tue, 02 Aug 2022 16:16:16: 14000000 INFO @ Tue, 02 Aug 2022 16:16:19: 11000000 INFO @ Tue, 02 Aug 2022 16:16:24: 15000000 INFO @ Tue, 02 Aug 2022 16:16:26: 6000000 INFO @ Tue, 02 Aug 2022 16:16:27: 12000000 INFO @ Tue, 02 Aug 2022 16:16:32: 16000000 INFO @ Tue, 02 Aug 2022 16:16:34: 13000000 INFO @ Tue, 02 Aug 2022 16:16:37: 7000000 INFO @ Tue, 02 Aug 2022 16:16:40: 17000000 INFO @ Tue, 02 Aug 2022 16:16:42: 14000000 INFO @ Tue, 02 Aug 2022 16:16:48: 8000000 INFO @ Tue, 02 Aug 2022 16:16:49: 18000000 INFO @ Tue, 02 Aug 2022 16:16:50: 15000000 INFO @ Tue, 02 Aug 2022 16:16:57: 16000000 INFO @ Tue, 02 Aug 2022 16:16:58: 9000000 INFO @ Tue, 02 Aug 2022 16:17:02: 19000000 INFO @ Tue, 02 Aug 2022 16:17:04: 17000000 INFO @ Tue, 02 Aug 2022 16:17:06: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:17:06: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:17:06: #1 total tags in treatment: 9407388 INFO @ Tue, 02 Aug 2022 16:17:06: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:17:06: #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 16:17:06: #1 tags after filtering in treatment: 9142657 INFO @ Tue, 02 Aug 2022 16:17:06: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 16:17:06: #1 finished! INFO @ Tue, 02 Aug 2022 16:17:06: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:17:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:17:07: #2 number of paired peaks: 25 WARNING @ Tue, 02 Aug 2022 16:17:07: Too few paired peaks (25) 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 16:17:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.05_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/SRX11548845/SRX11548845.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:17:09: 10000000 INFO @ Tue, 02 Aug 2022 16:17:11: 18000000 INFO @ Tue, 02 Aug 2022 16:17:18: 19000000 INFO @ Tue, 02 Aug 2022 16:17:19: 11000000 INFO @ Tue, 02 Aug 2022 16:17:21: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:17:21: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:17:21: #1 total tags in treatment: 9407388 INFO @ Tue, 02 Aug 2022 16:17:21: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:17:21: #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 16:17:21: #1 tags after filtering in treatment: 9142657 INFO @ Tue, 02 Aug 2022 16:17:21: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 16:17:21: #1 finished! INFO @ Tue, 02 Aug 2022 16:17:21: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:17:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:17:21: #2 number of paired peaks: 25 WARNING @ Tue, 02 Aug 2022 16:17:21: Too few paired peaks (25) 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 16:17:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.10_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/SRX11548845/SRX11548845.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:17:29: 12000000 INFO @ Tue, 02 Aug 2022 16:17:40: 13000000 INFO @ Tue, 02 Aug 2022 16:17:50: 14000000 INFO @ Tue, 02 Aug 2022 16:18:00: 15000000 INFO @ Tue, 02 Aug 2022 16:18:10: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:18:20: 17000000 INFO @ Tue, 02 Aug 2022 16:18:30: 18000000 INFO @ Tue, 02 Aug 2022 16:18:40: 19000000 INFO @ Tue, 02 Aug 2022 16:18:43: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:18:43: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:18:43: #1 total tags in treatment: 9407388 INFO @ Tue, 02 Aug 2022 16:18:43: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:18:43: #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 16:18:43: #1 tags after filtering in treatment: 9142657 INFO @ Tue, 02 Aug 2022 16:18:43: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 16:18:43: #1 finished! INFO @ Tue, 02 Aug 2022 16:18:43: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:18:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:18:44: #2 number of paired peaks: 25 WARNING @ Tue, 02 Aug 2022 16:18:44: Too few paired peaks (25) 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 16:18:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.20_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/SRX11548845/SRX11548845.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548845/SRX11548845.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。