Job ID = 16439366 SRX = SRX13453888 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8633746 spots for SRR17276250/SRR17276250.sra Written 8633746 spots for SRR17276250/SRR17276250.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439491 ("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: 00:16:59 8633746 reads; of these: 8633746 (100.00%) were paired; of these: 1160965 (13.45%) aligned concordantly 0 times 6651054 (77.04%) aligned concordantly exactly 1 time 821727 (9.52%) aligned concordantly >1 times ---- 1160965 pairs aligned concordantly 0 times; of these: 598553 (51.56%) aligned discordantly 1 time ---- 562412 pairs aligned 0 times concordantly or discordantly; of these: 1124824 mates make up the pairs; of these: 686979 (61.07%) aligned 0 times 250365 (22.26%) aligned exactly 1 time 187480 (16.67%) aligned >1 times 96.02% overall alignment rate Time searching: 00:16:59 Overall time: 00:16:59 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] 55561 / 8029313 = 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 15:24:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.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 15:24:55: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:24:55: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:25:03: 1000000 INFO @ Tue, 02 Aug 2022 15:25:11: 2000000 INFO @ Tue, 02 Aug 2022 15:25:19: 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 15:25:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.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 15:25:24: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:25:24: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:25:28: 4000000 INFO @ Tue, 02 Aug 2022 15:25:33: 1000000 INFO @ Tue, 02 Aug 2022 15:25:36: 5000000 INFO @ Tue, 02 Aug 2022 15:25:42: 2000000 INFO @ Tue, 02 Aug 2022 15:25:45: 6000000 INFO @ Tue, 02 Aug 2022 15:25:50: 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 15:25:54: 7000000 INFO @ Tue, 02 Aug 2022 15:25:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.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 15:25:54: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:25:54: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:25:59: 4000000 INFO @ Tue, 02 Aug 2022 15:26:03: 8000000 INFO @ Tue, 02 Aug 2022 15:26:04: 1000000 INFO @ Tue, 02 Aug 2022 15:26:09: 5000000 INFO @ Tue, 02 Aug 2022 15:26:13: 9000000 INFO @ Tue, 02 Aug 2022 15:26:13: 2000000 INFO @ Tue, 02 Aug 2022 15:26:19: 6000000 INFO @ Tue, 02 Aug 2022 15:26:22: 10000000 INFO @ Tue, 02 Aug 2022 15:26:23: 3000000 INFO @ Tue, 02 Aug 2022 15:26:29: 7000000 INFO @ Tue, 02 Aug 2022 15:26:31: 11000000 INFO @ Tue, 02 Aug 2022 15:26:32: 4000000 INFO @ Tue, 02 Aug 2022 15:26:38: 8000000 INFO @ Tue, 02 Aug 2022 15:26:41: 12000000 INFO @ Tue, 02 Aug 2022 15:26:41: 5000000 INFO @ Tue, 02 Aug 2022 15:26:48: 9000000 INFO @ Tue, 02 Aug 2022 15:26:50: 6000000 INFO @ Tue, 02 Aug 2022 15:26:51: 13000000 INFO @ Tue, 02 Aug 2022 15:26:57: 10000000 INFO @ Tue, 02 Aug 2022 15:26:58: 7000000 INFO @ Tue, 02 Aug 2022 15:27:00: 14000000 INFO @ Tue, 02 Aug 2022 15:27:06: 11000000 INFO @ Tue, 02 Aug 2022 15:27:07: 8000000 INFO @ Tue, 02 Aug 2022 15:27:09: 15000000 INFO @ Tue, 02 Aug 2022 15:27:15: 9000000 INFO @ Tue, 02 Aug 2022 15:27:15: 12000000 INFO @ Tue, 02 Aug 2022 15:27:18: 16000000 INFO @ Tue, 02 Aug 2022 15:27:22: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:27:22: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:27:22: #1 total tags in treatment: 7417915 INFO @ Tue, 02 Aug 2022 15:27:22: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:27:22: #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 15:27:22: #1 tags after filtering in treatment: 7185207 INFO @ Tue, 02 Aug 2022 15:27:22: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 15:27:22: #1 finished! INFO @ Tue, 02 Aug 2022 15:27:22: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:27:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:27:23: #2 number of paired peaks: 73 WARNING @ Tue, 02 Aug 2022 15:27:23: Too few paired peaks (73) 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 15:27:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.05_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/SRX13453888/SRX13453888.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:27:24: 10000000 INFO @ Tue, 02 Aug 2022 15:27:24: 13000000 INFO @ Tue, 02 Aug 2022 15:27:32: 11000000 INFO @ Tue, 02 Aug 2022 15:27:33: 14000000 INFO @ Tue, 02 Aug 2022 15:27:41: 12000000 INFO @ Tue, 02 Aug 2022 15:27:42: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 15:27:50: 13000000 INFO @ Tue, 02 Aug 2022 15:27:51: 16000000 INFO @ Tue, 02 Aug 2022 15:27:55: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:27:55: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:27:55: #1 total tags in treatment: 7417915 INFO @ Tue, 02 Aug 2022 15:27:55: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:27:55: #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 15:27:55: #1 tags after filtering in treatment: 7185207 INFO @ Tue, 02 Aug 2022 15:27:55: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 15:27:55: #1 finished! INFO @ Tue, 02 Aug 2022 15:27:55: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:27:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:27:56: #2 number of paired peaks: 73 WARNING @ Tue, 02 Aug 2022 15:27:56: Too few paired peaks (73) 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 15:27:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.10_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/SRX13453888/SRX13453888.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:27:59: 14000000 INFO @ Tue, 02 Aug 2022 15:28:07: 15000000 INFO @ Tue, 02 Aug 2022 15:28:15: 16000000 INFO @ Tue, 02 Aug 2022 15:28:19: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:28:19: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:28:19: #1 total tags in treatment: 7417915 INFO @ Tue, 02 Aug 2022 15:28:19: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:28:19: #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 15:28:20: #1 tags after filtering in treatment: 7185207 INFO @ Tue, 02 Aug 2022 15:28:20: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 15:28:20: #1 finished! INFO @ Tue, 02 Aug 2022 15:28:20: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:28:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:28:20: #2 number of paired peaks: 73 WARNING @ Tue, 02 Aug 2022 15:28:20: Too few paired peaks (73) 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 15:28:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.20_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/SRX13453888/SRX13453888.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453888/SRX13453888.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。