Job ID = 16439365 SRX = SRX13453887 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9108662 spots for SRR17276251/SRR17276251.sra Written 9108662 spots for SRR17276251/SRR17276251.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439498 ("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: 00:18:55 9108662 reads; of these: 9108662 (100.00%) were paired; of these: 591323 (6.49%) aligned concordantly 0 times 7438456 (81.66%) aligned concordantly exactly 1 time 1078883 (11.84%) aligned concordantly >1 times ---- 591323 pairs aligned concordantly 0 times; of these: 163912 (27.72%) aligned discordantly 1 time ---- 427411 pairs aligned 0 times concordantly or discordantly; of these: 854822 mates make up the pairs; of these: 525817 (61.51%) aligned 0 times 230806 (27.00%) aligned exactly 1 time 98199 (11.49%) aligned >1 times 97.11% overall alignment rate Time searching: 00:18:55 Overall time: 00:18:55 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] 53095 / 8644510 = 0.0061 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 15:27:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.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 15:27:25: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:27:25: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:27:35: 1000000 INFO @ Tue, 02 Aug 2022 15:27:45: 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 15:27:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.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 15:27:54: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:27:54: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:27:54: 3000000 INFO @ Tue, 02 Aug 2022 15:28:04: 4000000 INFO @ Tue, 02 Aug 2022 15:28:05: 1000000 INFO @ Tue, 02 Aug 2022 15:28:14: 5000000 INFO @ Tue, 02 Aug 2022 15:28:16: 2000000 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 15:28:24: 6000000 INFO @ Tue, 02 Aug 2022 15:28:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.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 15:28:24: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:28:24: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:28:27: 3000000 INFO @ Tue, 02 Aug 2022 15:28:34: 7000000 INFO @ Tue, 02 Aug 2022 15:28:34: 1000000 INFO @ Tue, 02 Aug 2022 15:28:38: 4000000 INFO @ Tue, 02 Aug 2022 15:28:45: 8000000 INFO @ Tue, 02 Aug 2022 15:28:45: 2000000 INFO @ Tue, 02 Aug 2022 15:28:49: 5000000 INFO @ Tue, 02 Aug 2022 15:28:55: 9000000 INFO @ Tue, 02 Aug 2022 15:28:55: 3000000 INFO @ Tue, 02 Aug 2022 15:29:00: 6000000 INFO @ Tue, 02 Aug 2022 15:29:05: 10000000 INFO @ Tue, 02 Aug 2022 15:29:06: 4000000 INFO @ Tue, 02 Aug 2022 15:29:11: 7000000 INFO @ Tue, 02 Aug 2022 15:29:15: 11000000 INFO @ Tue, 02 Aug 2022 15:29:16: 5000000 INFO @ Tue, 02 Aug 2022 15:29:23: 8000000 INFO @ Tue, 02 Aug 2022 15:29:26: 12000000 INFO @ Tue, 02 Aug 2022 15:29:27: 6000000 INFO @ Tue, 02 Aug 2022 15:29:35: 9000000 INFO @ Tue, 02 Aug 2022 15:29:37: 13000000 INFO @ Tue, 02 Aug 2022 15:29:37: 7000000 INFO @ Tue, 02 Aug 2022 15:29:46: 10000000 INFO @ Tue, 02 Aug 2022 15:29:47: 14000000 INFO @ Tue, 02 Aug 2022 15:29:48: 8000000 INFO @ Tue, 02 Aug 2022 15:29:57: 11000000 INFO @ Tue, 02 Aug 2022 15:29:57: 15000000 INFO @ Tue, 02 Aug 2022 15:29:58: 9000000 INFO @ Tue, 02 Aug 2022 15:30:08: 12000000 INFO @ Tue, 02 Aug 2022 15:30:08: 16000000 INFO @ Tue, 02 Aug 2022 15:30:09: 10000000 INFO @ Tue, 02 Aug 2022 15:30:18: 17000000 INFO @ Tue, 02 Aug 2022 15:30:18: 13000000 INFO @ Tue, 02 Aug 2022 15:30:19: 11000000 INFO @ Tue, 02 Aug 2022 15:30:24: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:30:24: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:30:24: #1 total tags in treatment: 8464531 INFO @ Tue, 02 Aug 2022 15:30:24: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:30:24: #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 15:30:25: #1 tags after filtering in treatment: 8252447 INFO @ Tue, 02 Aug 2022 15:30:25: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 15:30:25: #1 finished! INFO @ Tue, 02 Aug 2022 15:30:25: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:30:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:30:25: #2 number of paired peaks: 23 WARNING @ Tue, 02 Aug 2022 15:30:25: 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 15:30:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.05_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/SRX13453887/SRX13453887.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:30:29: 14000000 INFO @ Tue, 02 Aug 2022 15:30:30: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 15:30:40: 13000000 INFO @ Tue, 02 Aug 2022 15:30:40: 15000000 INFO @ Tue, 02 Aug 2022 15:30:49: 14000000 INFO @ Tue, 02 Aug 2022 15:30:51: 16000000 INFO @ Tue, 02 Aug 2022 15:30:59: 15000000 INFO @ Tue, 02 Aug 2022 15:31:02: 17000000 INFO @ Tue, 02 Aug 2022 15:31:08: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:31:08: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:31:08: #1 total tags in treatment: 8464531 INFO @ Tue, 02 Aug 2022 15:31:08: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:31:08: #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 15:31:08: #1 tags after filtering in treatment: 8252447 INFO @ Tue, 02 Aug 2022 15:31:08: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 15:31:08: #1 finished! INFO @ Tue, 02 Aug 2022 15:31:08: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:31:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:31:09: #2 number of paired peaks: 23 WARNING @ Tue, 02 Aug 2022 15:31:09: 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 15:31:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.10_peaks.narrowPeak: No such file or directory INFO @ Tue, 02 Aug 2022 15:31:09: 16000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:31:19: 17000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 15:31:24: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:31:24: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:31:24: #1 total tags in treatment: 8464531 INFO @ Tue, 02 Aug 2022 15:31:24: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:31:24: #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 15:31:24: #1 tags after filtering in treatment: 8252447 INFO @ Tue, 02 Aug 2022 15:31:24: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 15:31:24: #1 finished! INFO @ Tue, 02 Aug 2022 15:31:24: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:31:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:31:25: #2 number of paired peaks: 23 WARNING @ Tue, 02 Aug 2022 15:31:25: 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 15:31:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.20_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/SRX13453887/SRX13453887.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453887/SRX13453887.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling