Job ID = 10165806 SRX = SRX5681702 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14008339 spots for SRR8895564/SRR8895564.sra Written 14008339 spots for SRR8895564/SRR8895564.sra fastq に変換しました。 bowtie でマッピング中... Your job 10166309 ("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: 00:25:28 14008339 reads; of these: 14008339 (100.00%) were paired; of these: 1057760 (7.55%) aligned concordantly 0 times 10121871 (72.26%) aligned concordantly exactly 1 time 2828708 (20.19%) aligned concordantly >1 times ---- 1057760 pairs aligned concordantly 0 times; of these: 266494 (25.19%) aligned discordantly 1 time ---- 791266 pairs aligned 0 times concordantly or discordantly; of these: 1582532 mates make up the pairs; of these: 1118898 (70.70%) aligned 0 times 268600 (16.97%) aligned exactly 1 time 195034 (12.32%) aligned >1 times 96.01% overall alignment rate Time searching: 00:25:28 Overall time: 00:25:28 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 12 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] 742237 / 13174339 = 0.0563 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:27:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.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 @ Thu, 08 Oct 2020 20:27:29: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:27:29: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:27:34: 1000000 INFO @ Thu, 08 Oct 2020 20:27:40: 2000000 INFO @ Thu, 08 Oct 2020 20:27:45: 3000000 INFO @ Thu, 08 Oct 2020 20:27:50: 4000000 INFO @ Thu, 08 Oct 2020 20:27:56: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:27:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.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 @ Thu, 08 Oct 2020 20:27:59: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:27:59: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:28:01: 6000000 INFO @ Thu, 08 Oct 2020 20:28:05: 1000000 INFO @ Thu, 08 Oct 2020 20:28:08: 7000000 INFO @ Thu, 08 Oct 2020 20:28:11: 2000000 INFO @ Thu, 08 Oct 2020 20:28:14: 8000000 INFO @ Thu, 08 Oct 2020 20:28:17: 3000000 INFO @ Thu, 08 Oct 2020 20:28:20: 9000000 INFO @ Thu, 08 Oct 2020 20:28:24: 4000000 INFO @ Thu, 08 Oct 2020 20:28:26: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:28:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.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 @ Thu, 08 Oct 2020 20:28:29: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:28:29: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:28:30: 5000000 INFO @ Thu, 08 Oct 2020 20:28:32: 11000000 INFO @ Thu, 08 Oct 2020 20:28:36: 1000000 INFO @ Thu, 08 Oct 2020 20:28:37: 6000000 INFO @ Thu, 08 Oct 2020 20:28:39: 12000000 INFO @ Thu, 08 Oct 2020 20:28:43: 7000000 INFO @ Thu, 08 Oct 2020 20:28:44: 2000000 INFO @ Thu, 08 Oct 2020 20:28:46: 13000000 INFO @ Thu, 08 Oct 2020 20:28:50: 8000000 INFO @ Thu, 08 Oct 2020 20:28:52: 3000000 INFO @ Thu, 08 Oct 2020 20:28:52: 14000000 INFO @ Thu, 08 Oct 2020 20:28:57: 9000000 INFO @ Thu, 08 Oct 2020 20:28:59: 15000000 INFO @ Thu, 08 Oct 2020 20:29:00: 4000000 INFO @ Thu, 08 Oct 2020 20:29:04: 10000000 INFO @ Thu, 08 Oct 2020 20:29:06: 16000000 INFO @ Thu, 08 Oct 2020 20:29:08: 5000000 INFO @ Thu, 08 Oct 2020 20:29:11: 11000000 INFO @ Thu, 08 Oct 2020 20:29:13: 17000000 INFO @ Thu, 08 Oct 2020 20:29:15: 6000000 INFO @ Thu, 08 Oct 2020 20:29:17: 12000000 INFO @ Thu, 08 Oct 2020 20:29:20: 18000000 INFO @ Thu, 08 Oct 2020 20:29:23: 7000000 INFO @ Thu, 08 Oct 2020 20:29:24: 13000000 INFO @ Thu, 08 Oct 2020 20:29:26: 19000000 INFO @ Thu, 08 Oct 2020 20:29:31: 8000000 INFO @ Thu, 08 Oct 2020 20:29:31: 14000000 INFO @ Thu, 08 Oct 2020 20:29:33: 20000000 INFO @ Thu, 08 Oct 2020 20:29:37: 9000000 INFO @ Thu, 08 Oct 2020 20:29:38: 15000000 INFO @ Thu, 08 Oct 2020 20:29:40: 21000000 INFO @ Thu, 08 Oct 2020 20:29:44: 10000000 INFO @ Thu, 08 Oct 2020 20:29:44: 16000000 INFO @ Thu, 08 Oct 2020 20:29:46: 22000000 INFO @ Thu, 08 Oct 2020 20:29:51: 11000000 INFO @ Thu, 08 Oct 2020 20:29:51: 17000000 INFO @ Thu, 08 Oct 2020 20:29:53: 23000000 INFO @ Thu, 08 Oct 2020 20:29:57: 18000000 INFO @ Thu, 08 Oct 2020 20:29:58: 12000000 INFO @ Thu, 08 Oct 2020 20:30:00: 24000000 INFO @ Thu, 08 Oct 2020 20:30:04: 19000000 INFO @ Thu, 08 Oct 2020 20:30:06: 13000000 INFO @ Thu, 08 Oct 2020 20:30:07: 25000000 INFO @ Thu, 08 Oct 2020 20:30:09: #1 tag size is determined as 75 bps INFO @ Thu, 08 Oct 2020 20:30:09: #1 tag size = 75 INFO @ Thu, 08 Oct 2020 20:30:09: #1 total tags in treatment: 12214770 INFO @ Thu, 08 Oct 2020 20:30:09: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:30:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:30:10: #1 tags after filtering in treatment: 11103750 INFO @ Thu, 08 Oct 2020 20:30:10: #1 Redundant rate of treatment: 0.09 INFO @ Thu, 08 Oct 2020 20:30:10: #1 finished! INFO @ Thu, 08 Oct 2020 20:30:10: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:30:10: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:30:10: #2 number of paired peaks: 59 WARNING @ Thu, 08 Oct 2020 20:30:10: Too few paired peaks (59) 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 @ Thu, 08 Oct 2020 20:30:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.05_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/SRX5681702/SRX5681702.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:30:11: 20000000 INFO @ Thu, 08 Oct 2020 20:30:14: 14000000 INFO @ Thu, 08 Oct 2020 20:30:18: 21000000 INFO @ Thu, 08 Oct 2020 20:30:22: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:30:25: 22000000 INFO @ Thu, 08 Oct 2020 20:30:30: 16000000 INFO @ Thu, 08 Oct 2020 20:30:32: 23000000 INFO @ Thu, 08 Oct 2020 20:30:37: 17000000 INFO @ Thu, 08 Oct 2020 20:30:39: 24000000 INFO @ Thu, 08 Oct 2020 20:30:45: 18000000 INFO @ Thu, 08 Oct 2020 20:30:46: 25000000 INFO @ Thu, 08 Oct 2020 20:30:49: #1 tag size is determined as 75 bps INFO @ Thu, 08 Oct 2020 20:30:49: #1 tag size = 75 INFO @ Thu, 08 Oct 2020 20:30:49: #1 total tags in treatment: 12214770 INFO @ Thu, 08 Oct 2020 20:30:49: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:30:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:30:49: #1 tags after filtering in treatment: 11103750 INFO @ Thu, 08 Oct 2020 20:30:49: #1 Redundant rate of treatment: 0.09 INFO @ Thu, 08 Oct 2020 20:30:49: #1 finished! INFO @ Thu, 08 Oct 2020 20:30:49: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:30:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:30:50: #2 number of paired peaks: 59 WARNING @ Thu, 08 Oct 2020 20:30:50: Too few paired peaks (59) 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 @ Thu, 08 Oct 2020 20:30:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.10_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/SRX5681702/SRX5681702.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:30:52: 19000000 INFO @ Thu, 08 Oct 2020 20:30:58: 20000000 INFO @ Thu, 08 Oct 2020 20:31:05: 21000000 INFO @ Thu, 08 Oct 2020 20:31:12: 22000000 BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:31:19: 23000000 INFO @ Thu, 08 Oct 2020 20:31:25: 24000000 INFO @ Thu, 08 Oct 2020 20:31:32: 25000000 INFO @ Thu, 08 Oct 2020 20:31:35: #1 tag size is determined as 75 bps INFO @ Thu, 08 Oct 2020 20:31:35: #1 tag size = 75 INFO @ Thu, 08 Oct 2020 20:31:35: #1 total tags in treatment: 12214770 INFO @ Thu, 08 Oct 2020 20:31:35: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:31:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:31:35: #1 tags after filtering in treatment: 11103750 INFO @ Thu, 08 Oct 2020 20:31:35: #1 Redundant rate of treatment: 0.09 INFO @ Thu, 08 Oct 2020 20:31:35: #1 finished! INFO @ Thu, 08 Oct 2020 20:31:35: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:31:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:31:36: #2 number of paired peaks: 59 WARNING @ Thu, 08 Oct 2020 20:31:36: Too few paired peaks (59) 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 @ Thu, 08 Oct 2020 20:31:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.20_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/SRX5681702/SRX5681702.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5681702/SRX5681702.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling