Job ID = 6528412 SRX = SRX5865781 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T15:08:41 prefetch.2.10.7: 1) Downloading 'SRR9090632'... 2020-06-29T15:08:41 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:14:09 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:14:09 prefetch.2.10.7: 1) 'SRR9090632' was downloaded successfully Read 22513288 spots for SRR9090632/SRR9090632.sra Written 22513288 spots for SRR9090632/SRR9090632.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: 00:46:19 22513288 reads; of these: 22513288 (100.00%) were paired; of these: 4983254 (22.13%) aligned concordantly 0 times 11666684 (51.82%) aligned concordantly exactly 1 time 5863350 (26.04%) aligned concordantly >1 times ---- 4983254 pairs aligned concordantly 0 times; of these: 534064 (10.72%) aligned discordantly 1 time ---- 4449190 pairs aligned 0 times concordantly or discordantly; of these: 8898380 mates make up the pairs; of these: 7618151 (85.61%) aligned 0 times 573629 (6.45%) aligned exactly 1 time 706600 (7.94%) aligned >1 times 83.08% overall alignment rate Time searching: 00:46:20 Overall time: 00:46:20 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 16 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] 1700622 / 17965704 = 0.0947 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 01:27:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.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 01:27:45: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:27:45: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:27:52: 1000000 INFO @ Tue, 30 Jun 2020 01:27:59: 2000000 INFO @ Tue, 30 Jun 2020 01:28:07: 3000000 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 01:28:14: 4000000 INFO @ Tue, 30 Jun 2020 01:28:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.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 01:28:15: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:28:15: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:28:22: 5000000 INFO @ Tue, 30 Jun 2020 01:28:23: 1000000 INFO @ Tue, 30 Jun 2020 01:28:30: 6000000 INFO @ Tue, 30 Jun 2020 01:28:30: 2000000 INFO @ Tue, 30 Jun 2020 01:28:37: 3000000 INFO @ Tue, 30 Jun 2020 01:28:38: 7000000 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 01:28:45: 4000000 INFO @ Tue, 30 Jun 2020 01:28:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.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 01:28:45: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:28:45: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:28:46: 8000000 INFO @ Tue, 30 Jun 2020 01:28:52: 5000000 INFO @ Tue, 30 Jun 2020 01:28:53: 1000000 INFO @ Tue, 30 Jun 2020 01:28:54: 9000000 INFO @ Tue, 30 Jun 2020 01:29:00: 6000000 INFO @ Tue, 30 Jun 2020 01:29:01: 2000000 INFO @ Tue, 30 Jun 2020 01:29:02: 10000000 INFO @ Tue, 30 Jun 2020 01:29:07: 7000000 INFO @ Tue, 30 Jun 2020 01:29:09: 3000000 INFO @ Tue, 30 Jun 2020 01:29:10: 11000000 INFO @ Tue, 30 Jun 2020 01:29:14: 8000000 INFO @ Tue, 30 Jun 2020 01:29:17: 4000000 INFO @ Tue, 30 Jun 2020 01:29:18: 12000000 INFO @ Tue, 30 Jun 2020 01:29:22: 9000000 INFO @ Tue, 30 Jun 2020 01:29:25: 5000000 INFO @ Tue, 30 Jun 2020 01:29:26: 13000000 INFO @ Tue, 30 Jun 2020 01:29:29: 10000000 INFO @ Tue, 30 Jun 2020 01:29:32: 6000000 INFO @ Tue, 30 Jun 2020 01:29:33: 14000000 INFO @ Tue, 30 Jun 2020 01:29:37: 11000000 INFO @ Tue, 30 Jun 2020 01:29:40: 7000000 INFO @ Tue, 30 Jun 2020 01:29:41: 15000000 INFO @ Tue, 30 Jun 2020 01:29:44: 12000000 INFO @ Tue, 30 Jun 2020 01:29:48: 8000000 INFO @ Tue, 30 Jun 2020 01:29:49: 16000000 INFO @ Tue, 30 Jun 2020 01:29:52: 13000000 INFO @ Tue, 30 Jun 2020 01:29:56: 9000000 INFO @ Tue, 30 Jun 2020 01:29:57: 17000000 INFO @ Tue, 30 Jun 2020 01:29:59: 14000000 INFO @ Tue, 30 Jun 2020 01:30:04: 10000000 INFO @ Tue, 30 Jun 2020 01:30:05: 18000000 INFO @ Tue, 30 Jun 2020 01:30:06: 15000000 INFO @ Tue, 30 Jun 2020 01:30:12: 11000000 INFO @ Tue, 30 Jun 2020 01:30:13: 19000000 INFO @ Tue, 30 Jun 2020 01:30:14: 16000000 INFO @ Tue, 30 Jun 2020 01:30:20: 12000000 INFO @ Tue, 30 Jun 2020 01:30:21: 20000000 INFO @ Tue, 30 Jun 2020 01:30:21: 17000000 INFO @ Tue, 30 Jun 2020 01:30:28: 13000000 INFO @ Tue, 30 Jun 2020 01:30:28: 18000000 INFO @ Tue, 30 Jun 2020 01:30:29: 21000000 INFO @ Tue, 30 Jun 2020 01:30:36: 19000000 INFO @ Tue, 30 Jun 2020 01:30:37: 14000000 INFO @ Tue, 30 Jun 2020 01:30:37: 22000000 INFO @ Tue, 30 Jun 2020 01:30:43: 20000000 INFO @ Tue, 30 Jun 2020 01:30:45: 15000000 INFO @ Tue, 30 Jun 2020 01:30:45: 23000000 INFO @ Tue, 30 Jun 2020 01:30:50: 21000000 INFO @ Tue, 30 Jun 2020 01:30:53: 16000000 INFO @ Tue, 30 Jun 2020 01:30:54: 24000000 INFO @ Tue, 30 Jun 2020 01:30:57: 22000000 INFO @ Tue, 30 Jun 2020 01:31:02: 17000000 INFO @ Tue, 30 Jun 2020 01:31:02: 25000000 INFO @ Tue, 30 Jun 2020 01:31:05: 23000000 INFO @ Tue, 30 Jun 2020 01:31:10: 18000000 INFO @ Tue, 30 Jun 2020 01:31:10: 26000000 INFO @ Tue, 30 Jun 2020 01:31:12: 24000000 INFO @ Tue, 30 Jun 2020 01:31:18: 19000000 INFO @ Tue, 30 Jun 2020 01:31:19: 27000000 INFO @ Tue, 30 Jun 2020 01:31:19: 25000000 INFO @ Tue, 30 Jun 2020 01:31:27: 26000000 INFO @ Tue, 30 Jun 2020 01:31:27: 20000000 INFO @ Tue, 30 Jun 2020 01:31:27: 28000000 INFO @ Tue, 30 Jun 2020 01:31:34: 27000000 INFO @ Tue, 30 Jun 2020 01:31:35: 21000000 INFO @ Tue, 30 Jun 2020 01:31:36: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:31:41: 28000000 INFO @ Tue, 30 Jun 2020 01:31:43: 22000000 INFO @ Tue, 30 Jun 2020 01:31:44: 30000000 INFO @ Tue, 30 Jun 2020 01:31:48: 29000000 INFO @ Tue, 30 Jun 2020 01:31:52: 23000000 INFO @ Tue, 30 Jun 2020 01:31:53: 31000000 INFO @ Tue, 30 Jun 2020 01:31:56: 30000000 INFO @ Tue, 30 Jun 2020 01:32:00: 24000000 INFO @ Tue, 30 Jun 2020 01:32:01: 32000000 INFO @ Tue, 30 Jun 2020 01:32:03: 31000000 INFO @ Tue, 30 Jun 2020 01:32:08: 25000000 INFO @ Tue, 30 Jun 2020 01:32:09: 33000000 INFO @ Tue, 30 Jun 2020 01:32:10: 32000000 INFO @ Tue, 30 Jun 2020 01:32:17: 26000000 INFO @ Tue, 30 Jun 2020 01:32:17: 34000000 INFO @ Tue, 30 Jun 2020 01:32:17: 33000000 INFO @ Tue, 30 Jun 2020 01:32:18: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:32:18: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:32:18: #1 total tags in treatment: 15852684 INFO @ Tue, 30 Jun 2020 01:32:18: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:32:18: #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 01:32:18: #1 tags after filtering in treatment: 13626999 INFO @ Tue, 30 Jun 2020 01:32:18: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 01:32:18: #1 finished! INFO @ Tue, 30 Jun 2020 01:32:18: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:32:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:32:19: #2 number of paired peaks: 67 WARNING @ Tue, 30 Jun 2020 01:32:19: Too few paired peaks (67) 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 01:32:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.05_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/SRX5865781/SRX5865781.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:32:25: 27000000 INFO @ Tue, 30 Jun 2020 01:32:25: 34000000 INFO @ Tue, 30 Jun 2020 01:32:25: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:32:25: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:32:25: #1 total tags in treatment: 15852684 INFO @ Tue, 30 Jun 2020 01:32:25: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:32:25: #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 01:32:25: #1 tags after filtering in treatment: 13626999 INFO @ Tue, 30 Jun 2020 01:32:25: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 01:32:25: #1 finished! INFO @ Tue, 30 Jun 2020 01:32:25: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:32:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:32:26: #2 number of paired peaks: 67 WARNING @ Tue, 30 Jun 2020 01:32:26: Too few paired peaks (67) 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 01:32:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.10_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/SRX5865781/SRX5865781.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:32:32: 28000000 INFO @ Tue, 30 Jun 2020 01:32:39: 29000000 INFO @ Tue, 30 Jun 2020 01:32:46: 30000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:32:53: 31000000 INFO @ Tue, 30 Jun 2020 01:33:00: 32000000 INFO @ Tue, 30 Jun 2020 01:33:07: 33000000 INFO @ Tue, 30 Jun 2020 01:33:14: 34000000 INFO @ Tue, 30 Jun 2020 01:33:14: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:33:14: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:33:14: #1 total tags in treatment: 15852684 INFO @ Tue, 30 Jun 2020 01:33:14: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:33:14: #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 01:33:14: #1 tags after filtering in treatment: 13626999 INFO @ Tue, 30 Jun 2020 01:33:14: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 30 Jun 2020 01:33:14: #1 finished! INFO @ Tue, 30 Jun 2020 01:33:14: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:33:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:33:15: #2 number of paired peaks: 67 WARNING @ Tue, 30 Jun 2020 01:33:15: Too few paired peaks (67) 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 01:33:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.20_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/SRX5865781/SRX5865781.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865781/SRX5865781.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling