Job ID = 16439607 SRX = SRX9518340 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 26090069 spots for SRR13070823/SRR13070823.sra Written 26090069 spots for SRR13070823/SRR13070823.sra fastq に変換しました。 bowtie でマッピング中... Your job 16440117 ("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: 01:27:09 26090069 reads; of these: 26090069 (100.00%) were paired; of these: 2148543 (8.24%) aligned concordantly 0 times 17394058 (66.67%) aligned concordantly exactly 1 time 6547468 (25.10%) aligned concordantly >1 times ---- 2148543 pairs aligned concordantly 0 times; of these: 410522 (19.11%) aligned discordantly 1 time ---- 1738021 pairs aligned 0 times concordantly or discordantly; of these: 3476042 mates make up the pairs; of these: 1949739 (56.09%) aligned 0 times 782170 (22.50%) aligned exactly 1 time 744133 (21.41%) aligned >1 times 96.26% overall alignment rate Time searching: 01:27:10 Overall time: 01:27:10 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 24 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] 1341574 / 24119737 = 0.0556 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 17:29:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.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 17:29:59: #1 read tag files... INFO @ Tue, 02 Aug 2022 17:29:59: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 17:30:08: 1000000 INFO @ Tue, 02 Aug 2022 17:30:18: 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 17:30:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.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 17:30:26: #1 read tag files... INFO @ Tue, 02 Aug 2022 17:30:26: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 17:30:27: 3000000 INFO @ Tue, 02 Aug 2022 17:30:36: 1000000 INFO @ Tue, 02 Aug 2022 17:30:37: 4000000 INFO @ Tue, 02 Aug 2022 17:30:46: 2000000 INFO @ Tue, 02 Aug 2022 17:30:47: 5000000 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 17:30:56: 3000000 INFO @ Tue, 02 Aug 2022 17:30:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.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 17:30:56: #1 read tag files... INFO @ Tue, 02 Aug 2022 17:30:56: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 17:30:56: 6000000 INFO @ Tue, 02 Aug 2022 17:31:06: 1000000 INFO @ Tue, 02 Aug 2022 17:31:06: 4000000 INFO @ Tue, 02 Aug 2022 17:31:06: 7000000 INFO @ Tue, 02 Aug 2022 17:31:15: 2000000 INFO @ Tue, 02 Aug 2022 17:31:16: 8000000 INFO @ Tue, 02 Aug 2022 17:31:16: 5000000 INFO @ Tue, 02 Aug 2022 17:31:24: 9000000 INFO @ Tue, 02 Aug 2022 17:31:24: 3000000 INFO @ Tue, 02 Aug 2022 17:31:27: 6000000 INFO @ Tue, 02 Aug 2022 17:31:32: 10000000 INFO @ Tue, 02 Aug 2022 17:31:34: 4000000 INFO @ Tue, 02 Aug 2022 17:31:37: 7000000 INFO @ Tue, 02 Aug 2022 17:31:41: 11000000 INFO @ Tue, 02 Aug 2022 17:31:45: 5000000 INFO @ Tue, 02 Aug 2022 17:31:47: 8000000 INFO @ Tue, 02 Aug 2022 17:31:50: 12000000 INFO @ Tue, 02 Aug 2022 17:31:54: 6000000 INFO @ Tue, 02 Aug 2022 17:31:57: 9000000 INFO @ Tue, 02 Aug 2022 17:31:59: 13000000 INFO @ Tue, 02 Aug 2022 17:32:04: 7000000 INFO @ Tue, 02 Aug 2022 17:32:07: 10000000 INFO @ Tue, 02 Aug 2022 17:32:08: 14000000 INFO @ Tue, 02 Aug 2022 17:32:14: 8000000 INFO @ Tue, 02 Aug 2022 17:32:16: 11000000 INFO @ Tue, 02 Aug 2022 17:32:17: 15000000 INFO @ Tue, 02 Aug 2022 17:32:24: 9000000 INFO @ Tue, 02 Aug 2022 17:32:26: 16000000 INFO @ Tue, 02 Aug 2022 17:32:26: 12000000 INFO @ Tue, 02 Aug 2022 17:32:34: 10000000 INFO @ Tue, 02 Aug 2022 17:32:35: 17000000 INFO @ Tue, 02 Aug 2022 17:32:36: 13000000 INFO @ Tue, 02 Aug 2022 17:32:45: 11000000 INFO @ Tue, 02 Aug 2022 17:32:45: 18000000 INFO @ Tue, 02 Aug 2022 17:32:45: 14000000 INFO @ Tue, 02 Aug 2022 17:32:55: 15000000 INFO @ Tue, 02 Aug 2022 17:32:55: 19000000 INFO @ Tue, 02 Aug 2022 17:32:55: 12000000 INFO @ Tue, 02 Aug 2022 17:33:04: 16000000 INFO @ Tue, 02 Aug 2022 17:33:05: 20000000 INFO @ Tue, 02 Aug 2022 17:33:05: 13000000 INFO @ Tue, 02 Aug 2022 17:33:14: 17000000 INFO @ Tue, 02 Aug 2022 17:33:15: 21000000 INFO @ Tue, 02 Aug 2022 17:33:16: 14000000 INFO @ Tue, 02 Aug 2022 17:33:24: 18000000 INFO @ Tue, 02 Aug 2022 17:33:25: 22000000 INFO @ Tue, 02 Aug 2022 17:33:26: 15000000 INFO @ Tue, 02 Aug 2022 17:33:34: 19000000 INFO @ Tue, 02 Aug 2022 17:33:35: 23000000 INFO @ Tue, 02 Aug 2022 17:33:36: 16000000 INFO @ Tue, 02 Aug 2022 17:33:44: 20000000 INFO @ Tue, 02 Aug 2022 17:33:45: 24000000 INFO @ Tue, 02 Aug 2022 17:33:47: 17000000 INFO @ Tue, 02 Aug 2022 17:33:54: 21000000 INFO @ Tue, 02 Aug 2022 17:33:54: 25000000 INFO @ Tue, 02 Aug 2022 17:33:57: 18000000 INFO @ Tue, 02 Aug 2022 17:34:04: 22000000 INFO @ Tue, 02 Aug 2022 17:34:04: 26000000 INFO @ Tue, 02 Aug 2022 17:34:08: 19000000 INFO @ Tue, 02 Aug 2022 17:34:13: 27000000 INFO @ Tue, 02 Aug 2022 17:34:14: 23000000 INFO @ Tue, 02 Aug 2022 17:34:18: 20000000 INFO @ Tue, 02 Aug 2022 17:34:23: 28000000 INFO @ Tue, 02 Aug 2022 17:34:24: 24000000 INFO @ Tue, 02 Aug 2022 17:34:28: 21000000 INFO @ Tue, 02 Aug 2022 17:34:33: 25000000 INFO @ Tue, 02 Aug 2022 17:34:33: 29000000 INFO @ Tue, 02 Aug 2022 17:34:38: 22000000 INFO @ Tue, 02 Aug 2022 17:34:42: 26000000 INFO @ Tue, 02 Aug 2022 17:34:43: 30000000 INFO @ Tue, 02 Aug 2022 17:34:48: 23000000 INFO @ Tue, 02 Aug 2022 17:34:52: 27000000 INFO @ Tue, 02 Aug 2022 17:34:54: 31000000 INFO @ Tue, 02 Aug 2022 17:34:58: 24000000 INFO @ Tue, 02 Aug 2022 17:35:01: 28000000 INFO @ Tue, 02 Aug 2022 17:35:04: 32000000 INFO @ Tue, 02 Aug 2022 17:35:07: 25000000 INFO @ Tue, 02 Aug 2022 17:35:11: 29000000 INFO @ Tue, 02 Aug 2022 17:35:14: 33000000 INFO @ Tue, 02 Aug 2022 17:35:17: 26000000 INFO @ Tue, 02 Aug 2022 17:35:22: 30000000 INFO @ Tue, 02 Aug 2022 17:35:23: 34000000 INFO @ Tue, 02 Aug 2022 17:35:27: 27000000 INFO @ Tue, 02 Aug 2022 17:35:32: 31000000 INFO @ Tue, 02 Aug 2022 17:35:33: 35000000 INFO @ Tue, 02 Aug 2022 17:35:37: 28000000 INFO @ Tue, 02 Aug 2022 17:35:43: 36000000 INFO @ Tue, 02 Aug 2022 17:35:43: 32000000 INFO @ Tue, 02 Aug 2022 17:35:48: 29000000 INFO @ Tue, 02 Aug 2022 17:35:52: 37000000 INFO @ Tue, 02 Aug 2022 17:35:53: 33000000 INFO @ Tue, 02 Aug 2022 17:35:58: 30000000 INFO @ Tue, 02 Aug 2022 17:36:02: 38000000 INFO @ Tue, 02 Aug 2022 17:36:03: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 17:36:09: 31000000 INFO @ Tue, 02 Aug 2022 17:36:12: 39000000 INFO @ Tue, 02 Aug 2022 17:36:13: 35000000 INFO @ Tue, 02 Aug 2022 17:36:19: 32000000 INFO @ Tue, 02 Aug 2022 17:36:22: 40000000 INFO @ Tue, 02 Aug 2022 17:36:23: 36000000 INFO @ Tue, 02 Aug 2022 17:36:29: 33000000 INFO @ Tue, 02 Aug 2022 17:36:33: 41000000 INFO @ Tue, 02 Aug 2022 17:36:33: 37000000 INFO @ Tue, 02 Aug 2022 17:36:39: 34000000 INFO @ Tue, 02 Aug 2022 17:36:43: 38000000 INFO @ Tue, 02 Aug 2022 17:36:43: 42000000 INFO @ Tue, 02 Aug 2022 17:36:49: 35000000 INFO @ Tue, 02 Aug 2022 17:36:53: 39000000 INFO @ Tue, 02 Aug 2022 17:36:54: 43000000 INFO @ Tue, 02 Aug 2022 17:36:59: 36000000 INFO @ Tue, 02 Aug 2022 17:37:04: 40000000 INFO @ Tue, 02 Aug 2022 17:37:04: 44000000 INFO @ Tue, 02 Aug 2022 17:37:09: 37000000 INFO @ Tue, 02 Aug 2022 17:37:14: 41000000 INFO @ Tue, 02 Aug 2022 17:37:15: 45000000 INFO @ Tue, 02 Aug 2022 17:37:19: 38000000 INFO @ Tue, 02 Aug 2022 17:37:25: 42000000 INFO @ Tue, 02 Aug 2022 17:37:25: 46000000 INFO @ Tue, 02 Aug 2022 17:37:30: 39000000 INFO @ Tue, 02 Aug 2022 17:37:36: 47000000 INFO @ Tue, 02 Aug 2022 17:37:36: 43000000 INFO @ Tue, 02 Aug 2022 17:37:41: 40000000 INFO @ Tue, 02 Aug 2022 17:37:43: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 17:37:43: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 17:37:43: #1 total tags in treatment: 22605262 INFO @ Tue, 02 Aug 2022 17:37:43: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:37:43: #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 17:37:43: #1 tags after filtering in treatment: 21009669 INFO @ Tue, 02 Aug 2022 17:37:43: #1 Redundant rate of treatment: 0.07 INFO @ Tue, 02 Aug 2022 17:37:43: #1 finished! INFO @ Tue, 02 Aug 2022 17:37:43: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:37:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:37:45: #2 number of paired peaks: 65 WARNING @ Tue, 02 Aug 2022 17:37:45: Too few paired peaks (65) 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 17:37:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.05_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/SRX9518340/SRX9518340.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 17:37:47: 44000000 INFO @ Tue, 02 Aug 2022 17:37:52: 41000000 INFO @ Tue, 02 Aug 2022 17:37:58: 45000000 INFO @ Tue, 02 Aug 2022 17:38:03: 42000000 INFO @ Tue, 02 Aug 2022 17:38:08: 46000000 INFO @ Tue, 02 Aug 2022 17:38:15: 43000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 17:38:19: 47000000 INFO @ Tue, 02 Aug 2022 17:38:25: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 17:38:25: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 17:38:25: #1 total tags in treatment: 22605262 INFO @ Tue, 02 Aug 2022 17:38:25: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:38:25: #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 17:38:26: 44000000 INFO @ Tue, 02 Aug 2022 17:38:26: #1 tags after filtering in treatment: 21009669 INFO @ Tue, 02 Aug 2022 17:38:26: #1 Redundant rate of treatment: 0.07 INFO @ Tue, 02 Aug 2022 17:38:26: #1 finished! INFO @ Tue, 02 Aug 2022 17:38:26: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:38:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:38:28: #2 number of paired peaks: 65 WARNING @ Tue, 02 Aug 2022 17:38:28: Too few paired peaks (65) 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 17:38:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.10_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/SRX9518340/SRX9518340.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 17:38:37: 45000000 INFO @ Tue, 02 Aug 2022 17:38:48: 46000000 INFO @ Tue, 02 Aug 2022 17:38:59: 47000000 INFO @ Tue, 02 Aug 2022 17:39:05: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 17:39:05: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 17:39:05: #1 total tags in treatment: 22605262 INFO @ Tue, 02 Aug 2022 17:39:05: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 17:39:05: #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 17:39:05: #1 tags after filtering in treatment: 21009669 INFO @ Tue, 02 Aug 2022 17:39:05: #1 Redundant rate of treatment: 0.07 INFO @ Tue, 02 Aug 2022 17:39:05: #1 finished! INFO @ Tue, 02 Aug 2022 17:39:05: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 17:39:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 17:39:07: #2 number of paired peaks: 65 WARNING @ Tue, 02 Aug 2022 17:39:07: Too few paired peaks (65) 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 17:39:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.20_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/SRX9518340/SRX9518340.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518340/SRX9518340.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling