Job ID = 16439464 SRX = SRX9518322 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 22651757 spots for SRR13070805/SRR13070805.sra Written 22651757 spots for SRR13070805/SRR13070805.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439735 ("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: 00:42:48 22651757 reads; of these: 22651757 (100.00%) were paired; of these: 1804474 (7.97%) aligned concordantly 0 times 15724433 (69.42%) aligned concordantly exactly 1 time 5122850 (22.62%) aligned concordantly >1 times ---- 1804474 pairs aligned concordantly 0 times; of these: 276830 (15.34%) aligned discordantly 1 time ---- 1527644 pairs aligned 0 times concordantly or discordantly; of these: 3055288 mates make up the pairs; of these: 2018415 (66.06%) aligned 0 times 418462 (13.70%) aligned exactly 1 time 618411 (20.24%) aligned >1 times 95.54% overall alignment rate Time searching: 00:42:48 Overall time: 00:42:48 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 20 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] 219349 / 21079635 = 0.0104 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 16:16:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.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 16:16:05: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:16:05: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:16:11: 1000000 INFO @ Tue, 02 Aug 2022 16:16:17: 2000000 INFO @ Tue, 02 Aug 2022 16:16:23: 3000000 INFO @ Tue, 02 Aug 2022 16:16:29: 4000000 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 16:16:35: 5000000 INFO @ Tue, 02 Aug 2022 16:16:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.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 16:16:35: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:16:35: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:16:41: 6000000 INFO @ Tue, 02 Aug 2022 16:16:41: 1000000 INFO @ Tue, 02 Aug 2022 16:16:47: 7000000 INFO @ Tue, 02 Aug 2022 16:16:48: 2000000 INFO @ Tue, 02 Aug 2022 16:16:54: 8000000 INFO @ Tue, 02 Aug 2022 16:16:54: 3000000 INFO @ Tue, 02 Aug 2022 16:17:00: 9000000 INFO @ Tue, 02 Aug 2022 16:17:01: 4000000 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 16:17:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.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 16:17:05: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:17:05: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:17:07: 10000000 INFO @ Tue, 02 Aug 2022 16:17:07: 5000000 INFO @ Tue, 02 Aug 2022 16:17:12: 1000000 INFO @ Tue, 02 Aug 2022 16:17:14: 11000000 INFO @ Tue, 02 Aug 2022 16:17:14: 6000000 INFO @ Tue, 02 Aug 2022 16:17:19: 2000000 INFO @ Tue, 02 Aug 2022 16:17:20: 7000000 INFO @ Tue, 02 Aug 2022 16:17:21: 12000000 INFO @ Tue, 02 Aug 2022 16:17:26: 3000000 INFO @ Tue, 02 Aug 2022 16:17:27: 8000000 INFO @ Tue, 02 Aug 2022 16:17:28: 13000000 INFO @ Tue, 02 Aug 2022 16:17:33: 4000000 INFO @ Tue, 02 Aug 2022 16:17:34: 9000000 INFO @ Tue, 02 Aug 2022 16:17:35: 14000000 INFO @ Tue, 02 Aug 2022 16:17:40: 5000000 INFO @ Tue, 02 Aug 2022 16:17:41: 10000000 INFO @ Tue, 02 Aug 2022 16:17:43: 15000000 INFO @ Tue, 02 Aug 2022 16:17:46: 6000000 INFO @ Tue, 02 Aug 2022 16:17:48: 11000000 INFO @ Tue, 02 Aug 2022 16:17:50: 16000000 INFO @ Tue, 02 Aug 2022 16:17:53: 7000000 INFO @ Tue, 02 Aug 2022 16:17:54: 12000000 INFO @ Tue, 02 Aug 2022 16:17:58: 17000000 INFO @ Tue, 02 Aug 2022 16:18:00: 8000000 INFO @ Tue, 02 Aug 2022 16:18:01: 13000000 INFO @ Tue, 02 Aug 2022 16:18:05: 18000000 INFO @ Tue, 02 Aug 2022 16:18:07: 9000000 INFO @ Tue, 02 Aug 2022 16:18:08: 14000000 INFO @ Tue, 02 Aug 2022 16:18:12: 19000000 INFO @ Tue, 02 Aug 2022 16:18:14: 10000000 INFO @ Tue, 02 Aug 2022 16:18:15: 15000000 INFO @ Tue, 02 Aug 2022 16:18:20: 20000000 INFO @ Tue, 02 Aug 2022 16:18:21: 11000000 INFO @ Tue, 02 Aug 2022 16:18:21: 16000000 INFO @ Tue, 02 Aug 2022 16:18:27: 21000000 INFO @ Tue, 02 Aug 2022 16:18:27: 12000000 INFO @ Tue, 02 Aug 2022 16:18:28: 17000000 INFO @ Tue, 02 Aug 2022 16:18:34: 13000000 INFO @ Tue, 02 Aug 2022 16:18:34: 22000000 INFO @ Tue, 02 Aug 2022 16:18:35: 18000000 INFO @ Tue, 02 Aug 2022 16:18:41: 14000000 INFO @ Tue, 02 Aug 2022 16:18:41: 23000000 INFO @ Tue, 02 Aug 2022 16:18:41: 19000000 INFO @ Tue, 02 Aug 2022 16:18:47: 15000000 INFO @ Tue, 02 Aug 2022 16:18:48: 20000000 INFO @ Tue, 02 Aug 2022 16:18:48: 24000000 INFO @ Tue, 02 Aug 2022 16:18:54: 16000000 INFO @ Tue, 02 Aug 2022 16:18:55: 21000000 INFO @ Tue, 02 Aug 2022 16:18:55: 25000000 INFO @ Tue, 02 Aug 2022 16:19:00: 17000000 INFO @ Tue, 02 Aug 2022 16:19:01: 22000000 INFO @ Tue, 02 Aug 2022 16:19:02: 26000000 INFO @ Tue, 02 Aug 2022 16:19:07: 18000000 INFO @ Tue, 02 Aug 2022 16:19:08: 23000000 INFO @ Tue, 02 Aug 2022 16:19:10: 27000000 INFO @ Tue, 02 Aug 2022 16:19:14: 19000000 INFO @ Tue, 02 Aug 2022 16:19:15: 24000000 INFO @ Tue, 02 Aug 2022 16:19:16: 28000000 INFO @ Tue, 02 Aug 2022 16:19:20: 20000000 INFO @ Tue, 02 Aug 2022 16:19:21: 25000000 INFO @ Tue, 02 Aug 2022 16:19:23: 29000000 INFO @ Tue, 02 Aug 2022 16:19:27: 21000000 INFO @ Tue, 02 Aug 2022 16:19:28: 26000000 INFO @ Tue, 02 Aug 2022 16:19:30: 30000000 INFO @ Tue, 02 Aug 2022 16:19:34: 22000000 INFO @ Tue, 02 Aug 2022 16:19:35: 27000000 INFO @ Tue, 02 Aug 2022 16:19:36: 31000000 INFO @ Tue, 02 Aug 2022 16:19:40: 23000000 INFO @ Tue, 02 Aug 2022 16:19:41: 28000000 INFO @ Tue, 02 Aug 2022 16:19:43: 32000000 INFO @ Tue, 02 Aug 2022 16:19:47: 24000000 INFO @ Tue, 02 Aug 2022 16:19:48: 29000000 INFO @ Tue, 02 Aug 2022 16:19:50: 33000000 INFO @ Tue, 02 Aug 2022 16:19:55: 25000000 INFO @ Tue, 02 Aug 2022 16:19:55: 30000000 INFO @ Tue, 02 Aug 2022 16:19:58: 34000000 INFO @ Tue, 02 Aug 2022 16:20:02: 26000000 INFO @ Tue, 02 Aug 2022 16:20:02: 31000000 INFO @ Tue, 02 Aug 2022 16:20:05: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:20:09: 27000000 INFO @ Tue, 02 Aug 2022 16:20:09: 32000000 INFO @ Tue, 02 Aug 2022 16:20:12: 36000000 INFO @ Tue, 02 Aug 2022 16:20:16: 28000000 INFO @ Tue, 02 Aug 2022 16:20:16: 33000000 INFO @ Tue, 02 Aug 2022 16:20:19: 37000000 INFO @ Tue, 02 Aug 2022 16:20:23: 29000000 INFO @ Tue, 02 Aug 2022 16:20:24: 34000000 INFO @ Tue, 02 Aug 2022 16:20:27: 38000000 INFO @ Tue, 02 Aug 2022 16:20:30: 30000000 INFO @ Tue, 02 Aug 2022 16:20:31: 35000000 INFO @ Tue, 02 Aug 2022 16:20:34: 39000000 INFO @ Tue, 02 Aug 2022 16:20:37: 31000000 INFO @ Tue, 02 Aug 2022 16:20:37: 36000000 INFO @ Tue, 02 Aug 2022 16:20:41: 40000000 INFO @ Tue, 02 Aug 2022 16:20:44: 37000000 INFO @ Tue, 02 Aug 2022 16:20:44: 32000000 INFO @ Tue, 02 Aug 2022 16:20:48: 41000000 INFO @ Tue, 02 Aug 2022 16:20:51: 38000000 INFO @ Tue, 02 Aug 2022 16:20:52: 33000000 INFO @ Tue, 02 Aug 2022 16:20:55: 42000000 INFO @ Tue, 02 Aug 2022 16:20:58: 39000000 INFO @ Tue, 02 Aug 2022 16:20:59: 34000000 INFO @ Tue, 02 Aug 2022 16:21:01: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:21:01: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:21:01: #1 total tags in treatment: 20628578 INFO @ Tue, 02 Aug 2022 16:21:01: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:21:01: #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 16:21:01: #1 tags after filtering in treatment: 19492665 INFO @ Tue, 02 Aug 2022 16:21:01: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 02 Aug 2022 16:21:01: #1 finished! INFO @ Tue, 02 Aug 2022 16:21:01: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:21:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:21:03: #2 number of paired peaks: 23 WARNING @ Tue, 02 Aug 2022 16:21:03: Too few paired peaks (23) 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 16:21:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.05_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/SRX9518322/SRX9518322.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:21:05: 40000000 INFO @ Tue, 02 Aug 2022 16:21:06: 35000000 INFO @ Tue, 02 Aug 2022 16:21:12: 41000000 INFO @ Tue, 02 Aug 2022 16:21:13: 36000000 INFO @ Tue, 02 Aug 2022 16:21:19: 42000000 INFO @ Tue, 02 Aug 2022 16:21:20: 37000000 INFO @ Tue, 02 Aug 2022 16:21:25: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:21:25: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:21:25: #1 total tags in treatment: 20628578 INFO @ Tue, 02 Aug 2022 16:21:25: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:21:25: #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 16:21:25: #1 tags after filtering in treatment: 19492665 INFO @ Tue, 02 Aug 2022 16:21:25: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 02 Aug 2022 16:21:25: #1 finished! INFO @ Tue, 02 Aug 2022 16:21:25: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:21:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:21:26: #2 number of paired peaks: 23 WARNING @ Tue, 02 Aug 2022 16:21:26: Too few paired peaks (23) 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 16:21:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.10_peaks.narrowPeak: No such file or directory INFO @ Tue, 02 Aug 2022 16:21:27: 38000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:21:33: 39000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:21:39: 40000000 INFO @ Tue, 02 Aug 2022 16:21:45: 41000000 INFO @ Tue, 02 Aug 2022 16:21:51: 42000000 INFO @ Tue, 02 Aug 2022 16:21:57: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:21:57: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:21:57: #1 total tags in treatment: 20628578 INFO @ Tue, 02 Aug 2022 16:21:57: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:21:57: #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 16:21:57: #1 tags after filtering in treatment: 19492665 INFO @ Tue, 02 Aug 2022 16:21:57: #1 Redundant rate of treatment: 0.06 INFO @ Tue, 02 Aug 2022 16:21:57: #1 finished! INFO @ Tue, 02 Aug 2022 16:21:57: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:21:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:21:59: #2 number of paired peaks: 23 WARNING @ Tue, 02 Aug 2022 16:21:59: Too few paired peaks (23) 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 16:21:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.20_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/SRX9518322/SRX9518322.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX9518322/SRX9518322.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling