Job ID = 16439652 SRX = SRX11499354 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17834228 spots for SRR15192698/SRR15192698.sra Written 17834228 spots for SRR15192698/SRR15192698.sra Read 12289020 spots for SRR15192699/SRR15192699.sra Written 12289020 spots for SRR15192699/SRR15192699.sra fastq に変換しました。 bowtie でマッピング中... Your job 16441109 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 02:39:34 30123248 reads; of these: 30123248 (100.00%) were paired; of these: 3648395 (12.11%) aligned concordantly 0 times 19765252 (65.61%) aligned concordantly exactly 1 time 6709601 (22.27%) aligned concordantly >1 times ---- 3648395 pairs aligned concordantly 0 times; of these: 1592122 (43.64%) aligned discordantly 1 time ---- 2056273 pairs aligned 0 times concordantly or discordantly; of these: 4112546 mates make up the pairs; of these: 2091358 (50.85%) aligned 0 times 850397 (20.68%) aligned exactly 1 time 1170791 (28.47%) aligned >1 times 96.53% overall alignment rate Time searching: 02:39:35 Overall time: 02:39:35 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 44 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] 5164504 / 25018107 = 0.2064 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 19:14:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.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 19:14:38: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:14:38: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:14:54: 1000000 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 19:15:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.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 19:15:06: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:15:06: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:15:10: 2000000 INFO @ Tue, 02 Aug 2022 19:15:20: 1000000 INFO @ Tue, 02 Aug 2022 19:15:26: 3000000 BedGraph に変換中... INFO @ Tue, 02 Aug 2022 19:15:33: 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 19:15:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.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 19:15:36: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:15:36: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:15:43: 4000000 INFO @ Tue, 02 Aug 2022 19:15:48: 3000000 INFO @ Tue, 02 Aug 2022 19:15:54: 1000000 INFO @ Tue, 02 Aug 2022 19:16:00: 5000000 INFO @ Tue, 02 Aug 2022 19:16:01: 4000000 INFO @ Tue, 02 Aug 2022 19:16:11: 2000000 INFO @ Tue, 02 Aug 2022 19:16:15: 5000000 INFO @ Tue, 02 Aug 2022 19:16:18: 6000000 INFO @ Tue, 02 Aug 2022 19:16:28: 3000000 INFO @ Tue, 02 Aug 2022 19:16:29: 6000000 INFO @ Tue, 02 Aug 2022 19:16:35: 7000000 INFO @ Tue, 02 Aug 2022 19:16:43: 7000000 INFO @ Tue, 02 Aug 2022 19:16:44: 4000000 INFO @ Tue, 02 Aug 2022 19:16:51: 8000000 INFO @ Tue, 02 Aug 2022 19:16:56: 8000000 INFO @ Tue, 02 Aug 2022 19:16:59: 5000000 INFO @ Tue, 02 Aug 2022 19:17:06: 9000000 INFO @ Tue, 02 Aug 2022 19:17:10: 9000000 INFO @ Tue, 02 Aug 2022 19:17:14: 6000000 INFO @ Tue, 02 Aug 2022 19:17:22: 10000000 INFO @ Tue, 02 Aug 2022 19:17:24: 10000000 INFO @ Tue, 02 Aug 2022 19:17:30: 7000000 INFO @ Tue, 02 Aug 2022 19:17:38: 11000000 INFO @ Tue, 02 Aug 2022 19:17:38: 11000000 INFO @ Tue, 02 Aug 2022 19:17:47: 8000000 INFO @ Tue, 02 Aug 2022 19:17:52: 12000000 INFO @ Tue, 02 Aug 2022 19:17:56: 12000000 INFO @ Tue, 02 Aug 2022 19:18:04: 9000000 INFO @ Tue, 02 Aug 2022 19:18:06: 13000000 INFO @ Tue, 02 Aug 2022 19:18:14: 13000000 INFO @ Tue, 02 Aug 2022 19:18:21: 14000000 INFO @ Tue, 02 Aug 2022 19:18:23: 10000000 INFO @ Tue, 02 Aug 2022 19:18:31: 14000000 INFO @ Tue, 02 Aug 2022 19:18:35: 15000000 INFO @ Tue, 02 Aug 2022 19:18:43: 11000000 INFO @ Tue, 02 Aug 2022 19:18:50: 15000000 INFO @ Tue, 02 Aug 2022 19:18:50: 16000000 INFO @ Tue, 02 Aug 2022 19:19:03: 12000000 INFO @ Tue, 02 Aug 2022 19:19:06: 17000000 INFO @ Tue, 02 Aug 2022 19:19:09: 16000000 INFO @ Tue, 02 Aug 2022 19:19:22: 18000000 INFO @ Tue, 02 Aug 2022 19:19:23: 13000000 INFO @ Tue, 02 Aug 2022 19:19:29: 17000000 INFO @ Tue, 02 Aug 2022 19:19:38: 19000000 INFO @ Tue, 02 Aug 2022 19:19:42: 14000000 INFO @ Tue, 02 Aug 2022 19:19:50: 18000000 INFO @ Tue, 02 Aug 2022 19:19:55: 20000000 INFO @ Tue, 02 Aug 2022 19:20:01: 15000000 INFO @ Tue, 02 Aug 2022 19:20:09: 19000000 INFO @ Tue, 02 Aug 2022 19:20:11: 21000000 INFO @ Tue, 02 Aug 2022 19:20:21: 16000000 INFO @ Tue, 02 Aug 2022 19:20:27: 22000000 INFO @ Tue, 02 Aug 2022 19:20:29: 20000000 INFO @ Tue, 02 Aug 2022 19:20:42: 17000000 INFO @ Tue, 02 Aug 2022 19:20:43: 23000000 INFO @ Tue, 02 Aug 2022 19:20:49: 21000000 INFO @ Tue, 02 Aug 2022 19:21:00: 24000000 INFO @ Tue, 02 Aug 2022 19:21:03: 18000000 INFO @ Tue, 02 Aug 2022 19:21:11: 22000000 INFO @ Tue, 02 Aug 2022 19:21:16: 25000000 INFO @ Tue, 02 Aug 2022 19:21:24: 19000000 INFO @ Tue, 02 Aug 2022 19:21:30: 23000000 INFO @ Tue, 02 Aug 2022 19:21:33: 26000000 INFO @ Tue, 02 Aug 2022 19:21:45: 20000000 INFO @ Tue, 02 Aug 2022 19:21:50: 27000000 INFO @ Tue, 02 Aug 2022 19:21:51: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 19:22:05: 21000000 INFO @ Tue, 02 Aug 2022 19:22:06: 28000000 INFO @ Tue, 02 Aug 2022 19:22:11: 25000000 INFO @ Tue, 02 Aug 2022 19:22:22: 29000000 INFO @ Tue, 02 Aug 2022 19:22:25: 22000000 INFO @ Tue, 02 Aug 2022 19:22:32: 26000000 INFO @ Tue, 02 Aug 2022 19:22:38: 30000000 INFO @ Tue, 02 Aug 2022 19:22:46: 23000000 INFO @ Tue, 02 Aug 2022 19:22:52: 27000000 INFO @ Tue, 02 Aug 2022 19:22:54: 31000000 INFO @ Tue, 02 Aug 2022 19:23:06: 24000000 INFO @ Tue, 02 Aug 2022 19:23:09: 32000000 INFO @ Tue, 02 Aug 2022 19:23:13: 28000000 INFO @ Tue, 02 Aug 2022 19:23:24: 33000000 INFO @ Tue, 02 Aug 2022 19:23:25: 25000000 INFO @ Tue, 02 Aug 2022 19:23:33: 29000000 INFO @ Tue, 02 Aug 2022 19:23:39: 34000000 INFO @ Tue, 02 Aug 2022 19:23:45: 26000000 INFO @ Tue, 02 Aug 2022 19:23:53: 30000000 INFO @ Tue, 02 Aug 2022 19:23:54: 35000000 INFO @ Tue, 02 Aug 2022 19:24:04: 27000000 INFO @ Tue, 02 Aug 2022 19:24:09: 36000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 19:24:13: 31000000 INFO @ Tue, 02 Aug 2022 19:24:23: 28000000 INFO @ Tue, 02 Aug 2022 19:24:24: 37000000 INFO @ Tue, 02 Aug 2022 19:24:34: 32000000 INFO @ Tue, 02 Aug 2022 19:24:39: 38000000 INFO @ Tue, 02 Aug 2022 19:24:43: 29000000 INFO @ Tue, 02 Aug 2022 19:24:55: 33000000 INFO @ Tue, 02 Aug 2022 19:24:56: 39000000 INFO @ Tue, 02 Aug 2022 19:25:01: 30000000 INFO @ Tue, 02 Aug 2022 19:25:12: 40000000 INFO @ Tue, 02 Aug 2022 19:25:15: 34000000 INFO @ Tue, 02 Aug 2022 19:25:19: 31000000 INFO @ Tue, 02 Aug 2022 19:25:27: 41000000 INFO @ Tue, 02 Aug 2022 19:25:35: 35000000 INFO @ Tue, 02 Aug 2022 19:25:39: 32000000 INFO @ Tue, 02 Aug 2022 19:25:45: 42000000 INFO @ Tue, 02 Aug 2022 19:25:55: 36000000 INFO @ Tue, 02 Aug 2022 19:26:00: 33000000 INFO @ Tue, 02 Aug 2022 19:26:03: 43000000 INFO @ Tue, 02 Aug 2022 19:26:16: 37000000 INFO @ Tue, 02 Aug 2022 19:26:21: 44000000 INFO @ Tue, 02 Aug 2022 19:26:22: 34000000 INFO @ Tue, 02 Aug 2022 19:26:37: 38000000 INFO @ Tue, 02 Aug 2022 19:26:38: 45000000 INFO @ Tue, 02 Aug 2022 19:26:42: 35000000 INFO @ Tue, 02 Aug 2022 19:26:56: 46000000 INFO @ Tue, 02 Aug 2022 19:26:58: 39000000 INFO @ Tue, 02 Aug 2022 19:27:02: 36000000 INFO @ Tue, 02 Aug 2022 19:27:13: 47000000 INFO @ Tue, 02 Aug 2022 19:27:17: 40000000 INFO @ Tue, 02 Aug 2022 19:27:21: 37000000 INFO @ Tue, 02 Aug 2022 19:27:29: #1 tag size is determined as 130 bps INFO @ Tue, 02 Aug 2022 19:27:29: #1 tag size = 130 INFO @ Tue, 02 Aug 2022 19:27:29: #1 total tags in treatment: 21494473 INFO @ Tue, 02 Aug 2022 19:27:29: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:27:29: #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 19:27:29: #1 tags after filtering in treatment: 19799275 INFO @ Tue, 02 Aug 2022 19:27:29: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 02 Aug 2022 19:27:29: #1 finished! INFO @ Tue, 02 Aug 2022 19:27:29: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:27:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:27:31: #2 number of paired peaks: 70 WARNING @ Tue, 02 Aug 2022 19:27:31: Too few paired peaks (70) 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 19:27:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.10_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/SRX11499354/SRX11499354.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 19:27:36: 41000000 INFO @ Tue, 02 Aug 2022 19:27:39: 38000000 INFO @ Tue, 02 Aug 2022 19:27:55: 42000000 INFO @ Tue, 02 Aug 2022 19:27:56: 39000000 INFO @ Tue, 02 Aug 2022 19:28:13: 40000000 INFO @ Tue, 02 Aug 2022 19:28:14: 43000000 INFO @ Tue, 02 Aug 2022 19:28:30: 41000000 INFO @ Tue, 02 Aug 2022 19:28:32: 44000000 INFO @ Tue, 02 Aug 2022 19:28:47: 42000000 INFO @ Tue, 02 Aug 2022 19:28:50: 45000000 INFO @ Tue, 02 Aug 2022 19:29:04: 43000000 INFO @ Tue, 02 Aug 2022 19:29:09: 46000000 INFO @ Tue, 02 Aug 2022 19:29:21: 44000000 INFO @ Tue, 02 Aug 2022 19:29:27: 47000000 INFO @ Tue, 02 Aug 2022 19:29:37: 45000000 INFO @ Tue, 02 Aug 2022 19:29:41: #1 tag size is determined as 130 bps INFO @ Tue, 02 Aug 2022 19:29:41: #1 tag size = 130 INFO @ Tue, 02 Aug 2022 19:29:41: #1 total tags in treatment: 21494473 INFO @ Tue, 02 Aug 2022 19:29:41: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:29:41: #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 19:29:42: #1 tags after filtering in treatment: 19799275 INFO @ Tue, 02 Aug 2022 19:29:42: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 02 Aug 2022 19:29:42: #1 finished! INFO @ Tue, 02 Aug 2022 19:29:42: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:29:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:29:44: #2 number of paired peaks: 70 WARNING @ Tue, 02 Aug 2022 19:29:44: Too few paired peaks (70) 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 19:29:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.05_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/SRX11499354/SRX11499354.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 19:29:52: 46000000 INFO @ Tue, 02 Aug 2022 19:30:08: 47000000 INFO @ Tue, 02 Aug 2022 19:30:21: #1 tag size is determined as 130 bps INFO @ Tue, 02 Aug 2022 19:30:21: #1 tag size = 130 INFO @ Tue, 02 Aug 2022 19:30:21: #1 total tags in treatment: 21494473 INFO @ Tue, 02 Aug 2022 19:30:21: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:30:21: #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 19:30:22: #1 tags after filtering in treatment: 19799275 INFO @ Tue, 02 Aug 2022 19:30:22: #1 Redundant rate of treatment: 0.08 INFO @ Tue, 02 Aug 2022 19:30:22: #1 finished! INFO @ Tue, 02 Aug 2022 19:30:22: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:30:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:30:24: #2 number of paired peaks: 70 WARNING @ Tue, 02 Aug 2022 19:30:24: Too few paired peaks (70) 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 19:30:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.20_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/SRX11499354/SRX11499354.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11499354/SRX11499354.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling