Job ID = 16439623 SRX = SRX11548850 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 10056367 spots for SRR15243021/SRR15243021.sra Written 10056367 spots for SRR15243021/SRR15243021.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439841 ("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: 00:30:47 10056367 reads; of these: 10056367 (100.00%) were paired; of these: 644890 (6.41%) aligned concordantly 0 times 7260335 (72.20%) aligned concordantly exactly 1 time 2151142 (21.39%) aligned concordantly >1 times ---- 644890 pairs aligned concordantly 0 times; of these: 53662 (8.32%) aligned discordantly 1 time ---- 591228 pairs aligned 0 times concordantly or discordantly; of these: 1182456 mates make up the pairs; of these: 801663 (67.80%) aligned 0 times 198589 (16.79%) aligned exactly 1 time 182204 (15.41%) aligned >1 times 96.01% overall alignment rate Time searching: 00:30:47 Overall time: 00:30:47 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] 290362 / 9445910 = 0.0307 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 16:24:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.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 16:24:07: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:24:07: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:24:16: 1000000 INFO @ Tue, 02 Aug 2022 16:24:25: 2000000 INFO @ Tue, 02 Aug 2022 16:24:33: 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 16:24:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.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 16:24:36: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:24:36: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:24:42: 4000000 INFO @ Tue, 02 Aug 2022 16:24:46: 1000000 INFO @ Tue, 02 Aug 2022 16:24:52: 5000000 INFO @ Tue, 02 Aug 2022 16:24:56: 2000000 INFO @ Tue, 02 Aug 2022 16:25:01: 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 16:25:05: 3000000 INFO @ Tue, 02 Aug 2022 16:25:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.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 16:25:06: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:25:06: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:25:10: 7000000 INFO @ Tue, 02 Aug 2022 16:25:15: 4000000 INFO @ Tue, 02 Aug 2022 16:25:15: 1000000 INFO @ Tue, 02 Aug 2022 16:25:19: 8000000 INFO @ Tue, 02 Aug 2022 16:25:24: 2000000 INFO @ Tue, 02 Aug 2022 16:25:25: 5000000 INFO @ Tue, 02 Aug 2022 16:25:29: 9000000 INFO @ Tue, 02 Aug 2022 16:25:34: 3000000 INFO @ Tue, 02 Aug 2022 16:25:35: 6000000 INFO @ Tue, 02 Aug 2022 16:25:38: 10000000 INFO @ Tue, 02 Aug 2022 16:25:44: 4000000 INFO @ Tue, 02 Aug 2022 16:25:45: 7000000 INFO @ Tue, 02 Aug 2022 16:25:48: 11000000 INFO @ Tue, 02 Aug 2022 16:25:54: 5000000 INFO @ Tue, 02 Aug 2022 16:25:55: 8000000 INFO @ Tue, 02 Aug 2022 16:25:57: 12000000 INFO @ Tue, 02 Aug 2022 16:26:04: 6000000 INFO @ Tue, 02 Aug 2022 16:26:06: 9000000 INFO @ Tue, 02 Aug 2022 16:26:07: 13000000 INFO @ Tue, 02 Aug 2022 16:26:15: 7000000 INFO @ Tue, 02 Aug 2022 16:26:16: 14000000 INFO @ Tue, 02 Aug 2022 16:26:16: 10000000 INFO @ Tue, 02 Aug 2022 16:26:26: 15000000 INFO @ Tue, 02 Aug 2022 16:26:26: 8000000 INFO @ Tue, 02 Aug 2022 16:26:27: 11000000 INFO @ Tue, 02 Aug 2022 16:26:36: 16000000 INFO @ Tue, 02 Aug 2022 16:26:37: 12000000 INFO @ Tue, 02 Aug 2022 16:26:38: 9000000 INFO @ Tue, 02 Aug 2022 16:26:46: 17000000 INFO @ Tue, 02 Aug 2022 16:26:48: 13000000 INFO @ Tue, 02 Aug 2022 16:26:49: 10000000 INFO @ Tue, 02 Aug 2022 16:26:57: 18000000 INFO @ Tue, 02 Aug 2022 16:27:00: 14000000 INFO @ Tue, 02 Aug 2022 16:27:01: 11000000 INFO @ Tue, 02 Aug 2022 16:27:04: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:27:04: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:27:04: #1 total tags in treatment: 9121404 INFO @ Tue, 02 Aug 2022 16:27:04: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:27:04: #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 16:27:05: #1 tags after filtering in treatment: 8778813 INFO @ Tue, 02 Aug 2022 16:27:05: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 16:27:05: #1 finished! INFO @ Tue, 02 Aug 2022 16:27:05: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:27:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:27:05: #2 number of paired peaks: 63 WARNING @ Tue, 02 Aug 2022 16:27:05: Too few paired peaks (63) 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 16:27:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.05_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/SRX11548850/SRX11548850.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:27:11: 15000000 INFO @ Tue, 02 Aug 2022 16:27:13: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:27:23: 16000000 INFO @ Tue, 02 Aug 2022 16:27:24: 13000000 INFO @ Tue, 02 Aug 2022 16:27:34: 17000000 INFO @ Tue, 02 Aug 2022 16:27:36: 14000000 INFO @ Tue, 02 Aug 2022 16:27:45: 18000000 INFO @ Tue, 02 Aug 2022 16:27:47: 15000000 INFO @ Tue, 02 Aug 2022 16:27:53: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:27:53: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:27:53: #1 total tags in treatment: 9121404 INFO @ Tue, 02 Aug 2022 16:27:53: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:27:53: #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 16:27:53: #1 tags after filtering in treatment: 8778813 INFO @ Tue, 02 Aug 2022 16:27:53: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 16:27:53: #1 finished! INFO @ Tue, 02 Aug 2022 16:27:53: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:27:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:27:54: #2 number of paired peaks: 63 WARNING @ Tue, 02 Aug 2022 16:27:54: Too few paired peaks (63) 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 16:27:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.10_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/SRX11548850/SRX11548850.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:27:59: 16000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:28:10: 17000000 INFO @ Tue, 02 Aug 2022 16:28:21: 18000000 INFO @ Tue, 02 Aug 2022 16:28:29: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:28:29: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:28:29: #1 total tags in treatment: 9121404 INFO @ Tue, 02 Aug 2022 16:28:29: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:28:29: #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 16:28:29: #1 tags after filtering in treatment: 8778813 INFO @ Tue, 02 Aug 2022 16:28:29: #1 Redundant rate of treatment: 0.04 INFO @ Tue, 02 Aug 2022 16:28:29: #1 finished! INFO @ Tue, 02 Aug 2022 16:28:29: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:28:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:28:30: #2 number of paired peaks: 63 WARNING @ Tue, 02 Aug 2022 16:28:30: Too few paired peaks (63) 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 16:28:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548850/SRX11548850.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling