Job ID = 16439353 SRX = SRX13453882 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8837547 spots for SRR17276256/SRR17276256.sra Written 8837547 spots for SRR17276256/SRR17276256.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439487 ("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: 00:18:19 8837547 reads; of these: 8837547 (100.00%) were paired; of these: 597455 (6.76%) aligned concordantly 0 times 7096991 (80.30%) aligned concordantly exactly 1 time 1143101 (12.93%) aligned concordantly >1 times ---- 597455 pairs aligned concordantly 0 times; of these: 126032 (21.09%) aligned discordantly 1 time ---- 471423 pairs aligned 0 times concordantly or discordantly; of these: 942846 mates make up the pairs; of these: 635423 (67.39%) aligned 0 times 222315 (23.58%) aligned exactly 1 time 85108 (9.03%) aligned >1 times 96.40% overall alignment rate Time searching: 00:18:19 Overall time: 00:18:19 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] 57107 / 8317828 = 0.0069 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 15:25:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.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 15:25:51: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:25:51: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:26:06: 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 15:26:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.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 15:26:19: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:26:19: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:26:21: 2000000 INFO @ Tue, 02 Aug 2022 15:26:32: 1000000 INFO @ Tue, 02 Aug 2022 15:26:36: 3000000 BedGraph に変換中... INFO @ Tue, 02 Aug 2022 15:26:46: 2000000 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 15:26:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.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 15:26:49: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:26:49: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:26:52: 4000000 INFO @ Tue, 02 Aug 2022 15:27:01: 3000000 INFO @ Tue, 02 Aug 2022 15:27:06: 1000000 INFO @ Tue, 02 Aug 2022 15:27:09: 5000000 INFO @ Tue, 02 Aug 2022 15:27:15: 4000000 INFO @ Tue, 02 Aug 2022 15:27:23: 2000000 INFO @ Tue, 02 Aug 2022 15:27:26: 6000000 INFO @ Tue, 02 Aug 2022 15:27:31: 5000000 INFO @ Tue, 02 Aug 2022 15:27:39: 3000000 INFO @ Tue, 02 Aug 2022 15:27:44: 7000000 INFO @ Tue, 02 Aug 2022 15:27:47: 6000000 INFO @ Tue, 02 Aug 2022 15:27:56: 4000000 INFO @ Tue, 02 Aug 2022 15:28:01: 8000000 INFO @ Tue, 02 Aug 2022 15:28:02: 7000000 INFO @ Tue, 02 Aug 2022 15:28:12: 5000000 INFO @ Tue, 02 Aug 2022 15:28:17: 8000000 INFO @ Tue, 02 Aug 2022 15:28:18: 9000000 INFO @ Tue, 02 Aug 2022 15:28:29: 6000000 INFO @ Tue, 02 Aug 2022 15:28:31: 9000000 INFO @ Tue, 02 Aug 2022 15:28:34: 10000000 INFO @ Tue, 02 Aug 2022 15:28:45: 7000000 INFO @ Tue, 02 Aug 2022 15:28:46: 10000000 INFO @ Tue, 02 Aug 2022 15:28:51: 11000000 INFO @ Tue, 02 Aug 2022 15:29:00: 11000000 INFO @ Tue, 02 Aug 2022 15:29:01: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 15:29:08: 12000000 INFO @ Tue, 02 Aug 2022 15:29:14: 12000000 INFO @ Tue, 02 Aug 2022 15:29:17: 9000000 INFO @ Tue, 02 Aug 2022 15:29:25: 13000000 INFO @ Tue, 02 Aug 2022 15:29:28: 13000000 INFO @ Tue, 02 Aug 2022 15:29:34: 10000000 INFO @ Tue, 02 Aug 2022 15:29:42: 14000000 INFO @ Tue, 02 Aug 2022 15:29:42: 14000000 INFO @ Tue, 02 Aug 2022 15:29:52: 11000000 INFO @ Tue, 02 Aug 2022 15:29:56: 15000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 15:30:00: 15000000 INFO @ Tue, 02 Aug 2022 15:30:11: 12000000 INFO @ Tue, 02 Aug 2022 15:30:13: 16000000 INFO @ Tue, 02 Aug 2022 15:30:19: 16000000 INFO @ Tue, 02 Aug 2022 15:30:27: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:30:27: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:30:27: #1 total tags in treatment: 8183215 INFO @ Tue, 02 Aug 2022 15:30:27: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:30:27: #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 15:30:27: #1 tags after filtering in treatment: 7999946 INFO @ Tue, 02 Aug 2022 15:30:27: #1 Redundant rate of treatment: 0.02 INFO @ Tue, 02 Aug 2022 15:30:27: #1 finished! INFO @ Tue, 02 Aug 2022 15:30:27: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:30:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:30:27: #2 number of paired peaks: 23 WARNING @ Tue, 02 Aug 2022 15:30:27: 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, 02 Aug 2022 15:30:27: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.10_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/SRX13453882/SRX13453882.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:30:28: 13000000 INFO @ Tue, 02 Aug 2022 15:30:34: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:30:34: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:30:34: #1 total tags in treatment: 8183215 INFO @ Tue, 02 Aug 2022 15:30:34: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:30:34: #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 15:30:34: #1 tags after filtering in treatment: 7999946 INFO @ Tue, 02 Aug 2022 15:30:34: #1 Redundant rate of treatment: 0.02 INFO @ Tue, 02 Aug 2022 15:30:34: #1 finished! INFO @ Tue, 02 Aug 2022 15:30:34: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:30:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:30:35: #2 number of paired peaks: 23 WARNING @ Tue, 02 Aug 2022 15:30:35: 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, 02 Aug 2022 15:30:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.05_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/SRX13453882/SRX13453882.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:30:44: 14000000 INFO @ Tue, 02 Aug 2022 15:30:58: 15000000 INFO @ Tue, 02 Aug 2022 15:31:13: 16000000 INFO @ Tue, 02 Aug 2022 15:31:27: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:31:27: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:31:27: #1 total tags in treatment: 8183215 INFO @ Tue, 02 Aug 2022 15:31:27: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:31:27: #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 15:31:27: #1 tags after filtering in treatment: 7999946 INFO @ Tue, 02 Aug 2022 15:31:27: #1 Redundant rate of treatment: 0.02 INFO @ Tue, 02 Aug 2022 15:31:27: #1 finished! INFO @ Tue, 02 Aug 2022 15:31:27: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:31:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:31:28: #2 number of paired peaks: 23 WARNING @ Tue, 02 Aug 2022 15:31:28: 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, 02 Aug 2022 15:31:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.20_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/SRX13453882/SRX13453882.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453882/SRX13453882.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling