Job ID = 16439614 SRX = SRX11548843 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8895555 spots for SRR15243014/SRR15243014.sra Written 8895555 spots for SRR15243014/SRR15243014.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439813 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:26:23 8895555 reads; of these: 8895555 (100.00%) were paired; of these: 981277 (11.03%) aligned concordantly 0 times 6358820 (71.48%) aligned concordantly exactly 1 time 1555458 (17.49%) aligned concordantly >1 times ---- 981277 pairs aligned concordantly 0 times; of these: 209544 (21.35%) aligned discordantly 1 time ---- 771733 pairs aligned 0 times concordantly or discordantly; of these: 1543466 mates make up the pairs; of these: 1098676 (71.18%) aligned 0 times 209181 (13.55%) aligned exactly 1 time 235609 (15.26%) aligned >1 times 93.82% overall alignment rate Time searching: 00:26:24 Overall time: 00:26:24 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 8 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] 201507 / 8110955 = 0.0248 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 16:17:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.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 16:17:31: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:17:31: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:17:40: 1000000 INFO @ Tue, 02 Aug 2022 16:17:49: 2000000 INFO @ Tue, 02 Aug 2022 16:17:57: 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 16:17:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.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 16:17:59: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:17:59: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:18:06: 4000000 INFO @ Tue, 02 Aug 2022 16:18:09: 1000000 INFO @ Tue, 02 Aug 2022 16:18:14: 5000000 INFO @ Tue, 02 Aug 2022 16:18:19: 2000000 INFO @ Tue, 02 Aug 2022 16:18:23: 6000000 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 16:18:29: 3000000 INFO @ Tue, 02 Aug 2022 16:18:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.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 16:18:30: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:18:30: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:18:32: 7000000 INFO @ Tue, 02 Aug 2022 16:18:40: 4000000 INFO @ Tue, 02 Aug 2022 16:18:41: 8000000 INFO @ Tue, 02 Aug 2022 16:18:43: 1000000 INFO @ Tue, 02 Aug 2022 16:18:50: 5000000 INFO @ Tue, 02 Aug 2022 16:18:50: 9000000 INFO @ Tue, 02 Aug 2022 16:18:56: 2000000 INFO @ Tue, 02 Aug 2022 16:18:59: 10000000 INFO @ Tue, 02 Aug 2022 16:19:00: 6000000 INFO @ Tue, 02 Aug 2022 16:19:08: 11000000 INFO @ Tue, 02 Aug 2022 16:19:09: 3000000 INFO @ Tue, 02 Aug 2022 16:19:10: 7000000 INFO @ Tue, 02 Aug 2022 16:19:17: 12000000 INFO @ Tue, 02 Aug 2022 16:19:20: 8000000 INFO @ Tue, 02 Aug 2022 16:19:22: 4000000 INFO @ Tue, 02 Aug 2022 16:19:27: 13000000 INFO @ Tue, 02 Aug 2022 16:19:31: 9000000 INFO @ Tue, 02 Aug 2022 16:19:36: 14000000 INFO @ Tue, 02 Aug 2022 16:19:36: 5000000 INFO @ Tue, 02 Aug 2022 16:19:41: 10000000 INFO @ Tue, 02 Aug 2022 16:19:45: 15000000 INFO @ Tue, 02 Aug 2022 16:19:49: 6000000 INFO @ Tue, 02 Aug 2022 16:19:51: 11000000 INFO @ Tue, 02 Aug 2022 16:19:54: 16000000 INFO @ Tue, 02 Aug 2022 16:19:56: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:19:56: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:19:56: #1 total tags in treatment: 7714155 INFO @ Tue, 02 Aug 2022 16:19:56: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:19:56: #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 16:19:56: #1 tags after filtering in treatment: 7461086 INFO @ Tue, 02 Aug 2022 16:19:56: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 16:19:56: #1 finished! INFO @ Tue, 02 Aug 2022 16:19:56: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:19:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:19:57: #2 number of paired peaks: 78 WARNING @ Tue, 02 Aug 2022 16:19:57: Too few paired peaks (78) 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 16:19:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.05_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/SRX11548843/SRX11548843.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:20:02: 12000000 INFO @ Tue, 02 Aug 2022 16:20:02: 7000000 INFO @ Tue, 02 Aug 2022 16:20:12: 13000000 INFO @ Tue, 02 Aug 2022 16:20:15: 8000000 INFO @ Tue, 02 Aug 2022 16:20:22: 14000000 INFO @ Tue, 02 Aug 2022 16:20:28: 9000000 INFO @ Tue, 02 Aug 2022 16:20:33: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:20:42: 10000000 INFO @ Tue, 02 Aug 2022 16:20:43: 16000000 INFO @ Tue, 02 Aug 2022 16:20:46: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:20:46: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:20:46: #1 total tags in treatment: 7714155 INFO @ Tue, 02 Aug 2022 16:20:46: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:20:46: #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 16:20:46: #1 tags after filtering in treatment: 7461086 INFO @ Tue, 02 Aug 2022 16:20:46: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 16:20:46: #1 finished! INFO @ Tue, 02 Aug 2022 16:20:46: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:20:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:20:47: #2 number of paired peaks: 78 WARNING @ Tue, 02 Aug 2022 16:20:47: Too few paired peaks (78) 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 16:20:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.10_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/SRX11548843/SRX11548843.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:20:55: 11000000 INFO @ Tue, 02 Aug 2022 16:21:08: 12000000 INFO @ Tue, 02 Aug 2022 16:21:21: 13000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:21:34: 14000000 INFO @ Tue, 02 Aug 2022 16:21:47: 15000000 INFO @ Tue, 02 Aug 2022 16:22:00: 16000000 INFO @ Tue, 02 Aug 2022 16:22:03: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:22:03: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:22:03: #1 total tags in treatment: 7714155 INFO @ Tue, 02 Aug 2022 16:22:03: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:22:03: #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 16:22:03: #1 tags after filtering in treatment: 7461086 INFO @ Tue, 02 Aug 2022 16:22:03: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 16:22:03: #1 finished! INFO @ Tue, 02 Aug 2022 16:22:03: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:22:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:22:04: #2 number of paired peaks: 78 WARNING @ Tue, 02 Aug 2022 16:22:04: Too few paired peaks (78) 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 16:22:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.20_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/SRX11548843/SRX11548843.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548843/SRX11548843.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling