Job ID = 14172265 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 14172852 ("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: 00:26:08 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: 00:26:08 Overall time: 00:26:08 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 15:30:23: # 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 @ Sat, 11 Dec 2021 15:30:23: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:30:23: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:30:29: 1000000 INFO @ Sat, 11 Dec 2021 15:30:35: 2000000 INFO @ Sat, 11 Dec 2021 15:30:40: 3000000 INFO @ Sat, 11 Dec 2021 15:30:46: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 15:30:52: 5000000 INFO @ Sat, 11 Dec 2021 15:30:53: # 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 @ Sat, 11 Dec 2021 15:30:53: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:30:53: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:30:58: 6000000 INFO @ Sat, 11 Dec 2021 15:30:59: 1000000 INFO @ Sat, 11 Dec 2021 15:31:05: 7000000 INFO @ Sat, 11 Dec 2021 15:31:06: 2000000 INFO @ Sat, 11 Dec 2021 15:31:12: 8000000 INFO @ Sat, 11 Dec 2021 15:31:12: 3000000 INFO @ Sat, 11 Dec 2021 15:31:18: 9000000 INFO @ Sat, 11 Dec 2021 15:31:19: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 15:31:23: # 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 @ Sat, 11 Dec 2021 15:31:23: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:31:23: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:31:25: 10000000 INFO @ Sat, 11 Dec 2021 15:31:26: 5000000 INFO @ Sat, 11 Dec 2021 15:31:31: 1000000 INFO @ Sat, 11 Dec 2021 15:31:33: 11000000 INFO @ Sat, 11 Dec 2021 15:31:33: 6000000 INFO @ Sat, 11 Dec 2021 15:31:39: 2000000 INFO @ Sat, 11 Dec 2021 15:31:40: 12000000 INFO @ Sat, 11 Dec 2021 15:31:41: 7000000 INFO @ Sat, 11 Dec 2021 15:31:47: 13000000 INFO @ Sat, 11 Dec 2021 15:31:47: 3000000 INFO @ Sat, 11 Dec 2021 15:31:48: 8000000 INFO @ Sat, 11 Dec 2021 15:31:55: 14000000 INFO @ Sat, 11 Dec 2021 15:31:56: 9000000 INFO @ Sat, 11 Dec 2021 15:31:56: 4000000 INFO @ Sat, 11 Dec 2021 15:32:02: 15000000 INFO @ Sat, 11 Dec 2021 15:32:03: 10000000 INFO @ Sat, 11 Dec 2021 15:32:04: 5000000 INFO @ Sat, 11 Dec 2021 15:32:10: 16000000 INFO @ Sat, 11 Dec 2021 15:32:11: 11000000 INFO @ Sat, 11 Dec 2021 15:32:12: 6000000 INFO @ Sat, 11 Dec 2021 15:32:17: 17000000 INFO @ Sat, 11 Dec 2021 15:32:18: 12000000 INFO @ Sat, 11 Dec 2021 15:32:20: 7000000 INFO @ Sat, 11 Dec 2021 15:32:24: 18000000 INFO @ Sat, 11 Dec 2021 15:32:25: 13000000 INFO @ Sat, 11 Dec 2021 15:32:28: 8000000 INFO @ Sat, 11 Dec 2021 15:32:31: 19000000 INFO @ Sat, 11 Dec 2021 15:32:32: 14000000 INFO @ Sat, 11 Dec 2021 15:32:37: 9000000 INFO @ Sat, 11 Dec 2021 15:32:39: 20000000 INFO @ Sat, 11 Dec 2021 15:32:40: 15000000 INFO @ Sat, 11 Dec 2021 15:32:45: 10000000 INFO @ Sat, 11 Dec 2021 15:32:46: 21000000 INFO @ Sat, 11 Dec 2021 15:32:47: 16000000 INFO @ Sat, 11 Dec 2021 15:32:53: 11000000 INFO @ Sat, 11 Dec 2021 15:32:53: 22000000 INFO @ Sat, 11 Dec 2021 15:32:54: 17000000 INFO @ Sat, 11 Dec 2021 15:33:01: 23000000 INFO @ Sat, 11 Dec 2021 15:33:01: 18000000 INFO @ Sat, 11 Dec 2021 15:33:01: 12000000 INFO @ Sat, 11 Dec 2021 15:33:09: 19000000 INFO @ Sat, 11 Dec 2021 15:33:09: 24000000 INFO @ Sat, 11 Dec 2021 15:33:10: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:33:16: 20000000 INFO @ Sat, 11 Dec 2021 15:33:17: 25000000 INFO @ Sat, 11 Dec 2021 15:33:18: 14000000 INFO @ Sat, 11 Dec 2021 15:33:20: #1 tag size is determined as 75 bps INFO @ Sat, 11 Dec 2021 15:33:20: #1 tag size = 75 INFO @ Sat, 11 Dec 2021 15:33:20: #1 total tags in treatment: 12214770 INFO @ Sat, 11 Dec 2021 15:33:20: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:33:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:33:21: #1 tags after filtering in treatment: 11103750 INFO @ Sat, 11 Dec 2021 15:33:21: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:33:21: #1 finished! INFO @ Sat, 11 Dec 2021 15:33:21: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:33:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:33:21: #2 number of paired peaks: 59 WARNING @ Sat, 11 Dec 2021 15:33:21: 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 @ Sat, 11 Dec 2021 15:33:21: 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): 0 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 @ Sat, 11 Dec 2021 15:33:23: 21000000 INFO @ Sat, 11 Dec 2021 15:33:26: 15000000 INFO @ Sat, 11 Dec 2021 15:33:30: 22000000 INFO @ Sat, 11 Dec 2021 15:33:34: 16000000 INFO @ Sat, 11 Dec 2021 15:33:38: 23000000 INFO @ Sat, 11 Dec 2021 15:33:42: 17000000 INFO @ Sat, 11 Dec 2021 15:33:46: 24000000 INFO @ Sat, 11 Dec 2021 15:33:50: 18000000 INFO @ Sat, 11 Dec 2021 15:33:54: 25000000 INFO @ Sat, 11 Dec 2021 15:33:57: #1 tag size is determined as 75 bps INFO @ Sat, 11 Dec 2021 15:33:57: #1 tag size = 75 INFO @ Sat, 11 Dec 2021 15:33:57: #1 total tags in treatment: 12214770 INFO @ Sat, 11 Dec 2021 15:33:57: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:33:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:33:57: #1 tags after filtering in treatment: 11103750 INFO @ Sat, 11 Dec 2021 15:33:57: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:33:57: #1 finished! INFO @ Sat, 11 Dec 2021 15:33:57: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:33:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:33:58: #2 number of paired peaks: 59 WARNING @ Sat, 11 Dec 2021 15:33:58: 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 @ Sat, 11 Dec 2021 15:33:58: 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): 1 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 @ Sat, 11 Dec 2021 15:33:58: 19000000 INFO @ Sat, 11 Dec 2021 15:34:06: 20000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:34:13: 21000000 INFO @ Sat, 11 Dec 2021 15:34:20: 22000000 INFO @ Sat, 11 Dec 2021 15:34:28: 23000000 INFO @ Sat, 11 Dec 2021 15:34:35: 24000000 INFO @ Sat, 11 Dec 2021 15:34:41: 25000000 INFO @ Sat, 11 Dec 2021 15:34:43: #1 tag size is determined as 75 bps INFO @ Sat, 11 Dec 2021 15:34:43: #1 tag size = 75 INFO @ Sat, 11 Dec 2021 15:34:43: #1 total tags in treatment: 12214770 INFO @ Sat, 11 Dec 2021 15:34:43: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:34:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 15:34:44: #1 tags after filtering in treatment: 11103750 INFO @ Sat, 11 Dec 2021 15:34:44: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 15:34:44: #1 finished! INFO @ Sat, 11 Dec 2021 15:34:44: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:34:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:34:44: #2 number of paired peaks: 59 WARNING @ Sat, 11 Dec 2021 15:34:44: 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 @ Sat, 11 Dec 2021 15:34:44: 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): 1 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