Job ID = 6528414 SRX = SRX5865783 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:55:55 prefetch.2.10.7: 1) Downloading 'SRR9090634'... 2020-06-29T14:55:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:01:09 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:01:09 prefetch.2.10.7: 1) 'SRR9090634' was downloaded successfully Read 24668172 spots for SRR9090634/SRR9090634.sra Written 24668172 spots for SRR9090634/SRR9090634.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:48:49 24668172 reads; of these: 24668172 (100.00%) were paired; of these: 3197733 (12.96%) aligned concordantly 0 times 14308189 (58.00%) aligned concordantly exactly 1 time 7162250 (29.03%) aligned concordantly >1 times ---- 3197733 pairs aligned concordantly 0 times; of these: 313783 (9.81%) aligned discordantly 1 time ---- 2883950 pairs aligned 0 times concordantly or discordantly; of these: 5767900 mates make up the pairs; of these: 4810361 (83.40%) aligned 0 times 536618 (9.30%) aligned exactly 1 time 420921 (7.30%) aligned >1 times 90.25% overall alignment rate Time searching: 00:48:49 Overall time: 00:48:49 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] 1896664 / 21707597 = 0.0874 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 @ Tue, 30 Jun 2020 01:17:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.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, 30 Jun 2020 01:17:20: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:17:20: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:17:26: 1000000 INFO @ Tue, 30 Jun 2020 01:17:31: 2000000 INFO @ Tue, 30 Jun 2020 01:17:36: 3000000 INFO @ Tue, 30 Jun 2020 01:17:41: 4000000 INFO @ Tue, 30 Jun 2020 01:17:46: 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 @ Tue, 30 Jun 2020 01:17:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.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, 30 Jun 2020 01:17:50: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:17:50: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:17:52: 6000000 INFO @ Tue, 30 Jun 2020 01:17:57: 1000000 INFO @ Tue, 30 Jun 2020 01:17:58: 7000000 INFO @ Tue, 30 Jun 2020 01:18:04: 2000000 INFO @ Tue, 30 Jun 2020 01:18:05: 8000000 INFO @ Tue, 30 Jun 2020 01:18:11: 3000000 INFO @ Tue, 30 Jun 2020 01:18:11: 9000000 INFO @ Tue, 30 Jun 2020 01:18:18: 10000000 INFO @ Tue, 30 Jun 2020 01:18:18: 4000000 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 @ Tue, 30 Jun 2020 01:18:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.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, 30 Jun 2020 01:18:20: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:18:20: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:18:25: 11000000 INFO @ Tue, 30 Jun 2020 01:18:26: 5000000 INFO @ Tue, 30 Jun 2020 01:18:27: 1000000 INFO @ Tue, 30 Jun 2020 01:18:31: 12000000 INFO @ Tue, 30 Jun 2020 01:18:33: 6000000 INFO @ Tue, 30 Jun 2020 01:18:35: 2000000 INFO @ Tue, 30 Jun 2020 01:18:38: 13000000 INFO @ Tue, 30 Jun 2020 01:18:40: 7000000 INFO @ Tue, 30 Jun 2020 01:18:43: 3000000 INFO @ Tue, 30 Jun 2020 01:18:45: 14000000 INFO @ Tue, 30 Jun 2020 01:18:48: 8000000 INFO @ Tue, 30 Jun 2020 01:18:50: 4000000 INFO @ Tue, 30 Jun 2020 01:18:52: 15000000 INFO @ Tue, 30 Jun 2020 01:18:55: 9000000 INFO @ Tue, 30 Jun 2020 01:18:57: 5000000 INFO @ Tue, 30 Jun 2020 01:18:58: 16000000 INFO @ Tue, 30 Jun 2020 01:19:02: 10000000 INFO @ Tue, 30 Jun 2020 01:19:04: 6000000 INFO @ Tue, 30 Jun 2020 01:19:05: 17000000 INFO @ Tue, 30 Jun 2020 01:19:09: 11000000 INFO @ Tue, 30 Jun 2020 01:19:11: 7000000 INFO @ Tue, 30 Jun 2020 01:19:11: 18000000 INFO @ Tue, 30 Jun 2020 01:19:16: 12000000 INFO @ Tue, 30 Jun 2020 01:19:17: 19000000 INFO @ Tue, 30 Jun 2020 01:19:17: 8000000 INFO @ Tue, 30 Jun 2020 01:19:23: 13000000 INFO @ Tue, 30 Jun 2020 01:19:23: 20000000 INFO @ Tue, 30 Jun 2020 01:19:24: 9000000 INFO @ Tue, 30 Jun 2020 01:19:30: 14000000 INFO @ Tue, 30 Jun 2020 01:19:30: 21000000 INFO @ Tue, 30 Jun 2020 01:19:30: 10000000 INFO @ Tue, 30 Jun 2020 01:19:36: 22000000 INFO @ Tue, 30 Jun 2020 01:19:37: 11000000 INFO @ Tue, 30 Jun 2020 01:19:37: 15000000 INFO @ Tue, 30 Jun 2020 01:19:43: 23000000 INFO @ Tue, 30 Jun 2020 01:19:44: 12000000 INFO @ Tue, 30 Jun 2020 01:19:44: 16000000 INFO @ Tue, 30 Jun 2020 01:19:49: 24000000 INFO @ Tue, 30 Jun 2020 01:19:51: 13000000 INFO @ Tue, 30 Jun 2020 01:19:52: 17000000 INFO @ Tue, 30 Jun 2020 01:19:56: 25000000 INFO @ Tue, 30 Jun 2020 01:19:57: 14000000 INFO @ Tue, 30 Jun 2020 01:19:59: 18000000 INFO @ Tue, 30 Jun 2020 01:20:02: 26000000 INFO @ Tue, 30 Jun 2020 01:20:04: 15000000 INFO @ Tue, 30 Jun 2020 01:20:06: 19000000 INFO @ Tue, 30 Jun 2020 01:20:09: 27000000 INFO @ Tue, 30 Jun 2020 01:20:10: 16000000 INFO @ Tue, 30 Jun 2020 01:20:14: 20000000 INFO @ Tue, 30 Jun 2020 01:20:15: 28000000 INFO @ Tue, 30 Jun 2020 01:20:17: 17000000 INFO @ Tue, 30 Jun 2020 01:20:21: 21000000 INFO @ Tue, 30 Jun 2020 01:20:22: 29000000 INFO @ Tue, 30 Jun 2020 01:20:23: 18000000 INFO @ Tue, 30 Jun 2020 01:20:28: 30000000 INFO @ Tue, 30 Jun 2020 01:20:28: 22000000 INFO @ Tue, 30 Jun 2020 01:20:30: 19000000 INFO @ Tue, 30 Jun 2020 01:20:35: 31000000 INFO @ Tue, 30 Jun 2020 01:20:36: 23000000 INFO @ Tue, 30 Jun 2020 01:20:36: 20000000 INFO @ Tue, 30 Jun 2020 01:20:41: 32000000 INFO @ Tue, 30 Jun 2020 01:20:43: 21000000 INFO @ Tue, 30 Jun 2020 01:20:43: 24000000 INFO @ Tue, 30 Jun 2020 01:20:48: 33000000 INFO @ Tue, 30 Jun 2020 01:20:49: 22000000 INFO @ Tue, 30 Jun 2020 01:20:50: 25000000 INFO @ Tue, 30 Jun 2020 01:20:54: 34000000 INFO @ Tue, 30 Jun 2020 01:20:56: 23000000 INFO @ Tue, 30 Jun 2020 01:20:58: 26000000 INFO @ Tue, 30 Jun 2020 01:21:01: 35000000 INFO @ Tue, 30 Jun 2020 01:21:03: 24000000 INFO @ Tue, 30 Jun 2020 01:21:05: 27000000 INFO @ Tue, 30 Jun 2020 01:21:07: 36000000 INFO @ Tue, 30 Jun 2020 01:21:09: 25000000 INFO @ Tue, 30 Jun 2020 01:21:12: 28000000 INFO @ Tue, 30 Jun 2020 01:21:14: 37000000 INFO @ Tue, 30 Jun 2020 01:21:16: 26000000 INFO @ Tue, 30 Jun 2020 01:21:19: 29000000 INFO @ Tue, 30 Jun 2020 01:21:20: 38000000 INFO @ Tue, 30 Jun 2020 01:21:23: 27000000 INFO @ Tue, 30 Jun 2020 01:21:26: 30000000 INFO @ Tue, 30 Jun 2020 01:21:27: 39000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:21:30: 28000000 INFO @ Tue, 30 Jun 2020 01:21:34: 40000000 INFO @ Tue, 30 Jun 2020 01:21:34: 31000000 INFO @ Tue, 30 Jun 2020 01:21:36: 29000000 INFO @ Tue, 30 Jun 2020 01:21:39: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:21:39: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:21:39: #1 total tags in treatment: 19585089 INFO @ Tue, 30 Jun 2020 01:21:39: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:21:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:21:39: #1 tags after filtering in treatment: 16666740 INFO @ Tue, 30 Jun 2020 01:21:39: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 30 Jun 2020 01:21:39: #1 finished! INFO @ Tue, 30 Jun 2020 01:21:39: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:21:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:21:40: #2 number of paired peaks: 14 WARNING @ Tue, 30 Jun 2020 01:21:40: Too few paired peaks (14) 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, 30 Jun 2020 01:21:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.05_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/SRX5865783/SRX5865783.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:21:41: 32000000 INFO @ Tue, 30 Jun 2020 01:21:43: 30000000 INFO @ Tue, 30 Jun 2020 01:21:48: 33000000 INFO @ Tue, 30 Jun 2020 01:21:50: 31000000 INFO @ Tue, 30 Jun 2020 01:21:56: 34000000 INFO @ Tue, 30 Jun 2020 01:21:56: 32000000 INFO @ Tue, 30 Jun 2020 01:22:03: 33000000 INFO @ Tue, 30 Jun 2020 01:22:03: 35000000 INFO @ Tue, 30 Jun 2020 01:22:09: 34000000 INFO @ Tue, 30 Jun 2020 01:22:11: 36000000 INFO @ Tue, 30 Jun 2020 01:22:16: 35000000 INFO @ Tue, 30 Jun 2020 01:22:18: 37000000 INFO @ Tue, 30 Jun 2020 01:22:23: 36000000 INFO @ Tue, 30 Jun 2020 01:22:25: 38000000 INFO @ Tue, 30 Jun 2020 01:22:29: 37000000 INFO @ Tue, 30 Jun 2020 01:22:33: 39000000 INFO @ Tue, 30 Jun 2020 01:22:36: 38000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:22:40: 40000000 INFO @ Tue, 30 Jun 2020 01:22:43: 39000000 INFO @ Tue, 30 Jun 2020 01:22:46: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:22:46: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:22:46: #1 total tags in treatment: 19585089 INFO @ Tue, 30 Jun 2020 01:22:46: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:22:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:22:46: #1 tags after filtering in treatment: 16666740 INFO @ Tue, 30 Jun 2020 01:22:46: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 30 Jun 2020 01:22:46: #1 finished! INFO @ Tue, 30 Jun 2020 01:22:46: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:22:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:22:47: #2 number of paired peaks: 14 WARNING @ Tue, 30 Jun 2020 01:22:47: Too few paired peaks (14) 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, 30 Jun 2020 01:22:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.10_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/SRX5865783/SRX5865783.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:22:49: 40000000 INFO @ Tue, 30 Jun 2020 01:22:54: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:22:54: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:22:54: #1 total tags in treatment: 19585089 INFO @ Tue, 30 Jun 2020 01:22:54: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:22:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:22:54: #1 tags after filtering in treatment: 16666740 INFO @ Tue, 30 Jun 2020 01:22:54: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 30 Jun 2020 01:22:54: #1 finished! INFO @ Tue, 30 Jun 2020 01:22:54: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:22:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:22:55: #2 number of paired peaks: 14 WARNING @ Tue, 30 Jun 2020 01:22:55: Too few paired peaks (14) 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, 30 Jun 2020 01:22:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.20_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/SRX5865783/SRX5865783.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865783/SRX5865783.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling