Job ID = 6528370 SRX = SRX5431051 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T16:00:25 prefetch.2.10.7: 1) Downloading 'SRR8632350'... 2020-06-29T16:00:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T16:03:39 prefetch.2.10.7: HTTPS download succeed 2020-06-29T16:03:39 prefetch.2.10.7: 1) 'SRR8632350' was downloaded successfully Read 16205427 spots for SRR8632350/SRR8632350.sra Written 16205427 spots for SRR8632350/SRR8632350.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: 00:45:12 16205427 reads; of these: 16205427 (100.00%) were paired; of these: 1764686 (10.89%) aligned concordantly 0 times 9624224 (59.39%) aligned concordantly exactly 1 time 4816517 (29.72%) aligned concordantly >1 times ---- 1764686 pairs aligned concordantly 0 times; of these: 45985 (2.61%) aligned discordantly 1 time ---- 1718701 pairs aligned 0 times concordantly or discordantly; of these: 3437402 mates make up the pairs; of these: 2854345 (83.04%) aligned 0 times 312348 (9.09%) aligned exactly 1 time 270709 (7.88%) aligned >1 times 91.19% overall alignment rate Time searching: 00:45:12 Overall time: 00:45:12 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] 1868585 / 14452582 = 0.1293 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 02:09:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.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 02:09:07: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:09:07: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:09:13: 1000000 INFO @ Tue, 30 Jun 2020 02:09:18: 2000000 INFO @ Tue, 30 Jun 2020 02:09:24: 3000000 INFO @ Tue, 30 Jun 2020 02:09:29: 4000000 INFO @ Tue, 30 Jun 2020 02:09:34: 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 02:09:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.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 02:09:37: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:09:37: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:09:40: 6000000 INFO @ Tue, 30 Jun 2020 02:09:43: 1000000 INFO @ Tue, 30 Jun 2020 02:09:46: 7000000 INFO @ Tue, 30 Jun 2020 02:09:49: 2000000 INFO @ Tue, 30 Jun 2020 02:09:52: 8000000 INFO @ Tue, 30 Jun 2020 02:09:55: 3000000 INFO @ Tue, 30 Jun 2020 02:09:57: 9000000 INFO @ Tue, 30 Jun 2020 02:10:00: 4000000 INFO @ Tue, 30 Jun 2020 02:10:03: 10000000 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 02:10:06: 5000000 INFO @ Tue, 30 Jun 2020 02:10:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.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 02:10:07: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:10:07: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:10:09: 11000000 INFO @ Tue, 30 Jun 2020 02:10:12: 6000000 INFO @ Tue, 30 Jun 2020 02:10:13: 1000000 INFO @ Tue, 30 Jun 2020 02:10:15: 12000000 INFO @ Tue, 30 Jun 2020 02:10:18: 7000000 INFO @ Tue, 30 Jun 2020 02:10:18: 2000000 INFO @ Tue, 30 Jun 2020 02:10:21: 13000000 INFO @ Tue, 30 Jun 2020 02:10:23: 8000000 INFO @ Tue, 30 Jun 2020 02:10:23: 3000000 INFO @ Tue, 30 Jun 2020 02:10:26: 14000000 INFO @ Tue, 30 Jun 2020 02:10:29: 4000000 INFO @ Tue, 30 Jun 2020 02:10:29: 9000000 INFO @ Tue, 30 Jun 2020 02:10:32: 15000000 INFO @ Tue, 30 Jun 2020 02:10:34: 5000000 INFO @ Tue, 30 Jun 2020 02:10:35: 10000000 INFO @ Tue, 30 Jun 2020 02:10:38: 16000000 INFO @ Tue, 30 Jun 2020 02:10:40: 6000000 INFO @ Tue, 30 Jun 2020 02:10:41: 11000000 INFO @ Tue, 30 Jun 2020 02:10:44: 17000000 INFO @ Tue, 30 Jun 2020 02:10:45: 7000000 INFO @ Tue, 30 Jun 2020 02:10:47: 12000000 INFO @ Tue, 30 Jun 2020 02:10:50: 18000000 INFO @ Tue, 30 Jun 2020 02:10:50: 8000000 INFO @ Tue, 30 Jun 2020 02:10:52: 13000000 INFO @ Tue, 30 Jun 2020 02:10:55: 19000000 INFO @ Tue, 30 Jun 2020 02:10:56: 9000000 INFO @ Tue, 30 Jun 2020 02:10:58: 14000000 INFO @ Tue, 30 Jun 2020 02:11:01: 20000000 INFO @ Tue, 30 Jun 2020 02:11:01: 10000000 INFO @ Tue, 30 Jun 2020 02:11:04: 15000000 INFO @ Tue, 30 Jun 2020 02:11:06: 11000000 INFO @ Tue, 30 Jun 2020 02:11:06: 21000000 INFO @ Tue, 30 Jun 2020 02:11:09: 16000000 INFO @ Tue, 30 Jun 2020 02:11:12: 12000000 INFO @ Tue, 30 Jun 2020 02:11:12: 22000000 INFO @ Tue, 30 Jun 2020 02:11:15: 17000000 INFO @ Tue, 30 Jun 2020 02:11:17: 13000000 INFO @ Tue, 30 Jun 2020 02:11:18: 23000000 INFO @ Tue, 30 Jun 2020 02:11:20: 18000000 INFO @ Tue, 30 Jun 2020 02:11:22: 14000000 INFO @ Tue, 30 Jun 2020 02:11:23: 24000000 INFO @ Tue, 30 Jun 2020 02:11:26: 19000000 INFO @ Tue, 30 Jun 2020 02:11:28: 15000000 INFO @ Tue, 30 Jun 2020 02:11:29: 25000000 INFO @ Tue, 30 Jun 2020 02:11:32: 20000000 INFO @ Tue, 30 Jun 2020 02:11:33: 16000000 INFO @ Tue, 30 Jun 2020 02:11:34: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:11:34: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:11:34: #1 total tags in treatment: 12573612 INFO @ Tue, 30 Jun 2020 02:11:34: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:11:34: #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 02:11:34: #1 tags after filtering in treatment: 10978725 INFO @ Tue, 30 Jun 2020 02:11:34: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 30 Jun 2020 02:11:34: #1 finished! INFO @ Tue, 30 Jun 2020 02:11:34: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:11:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:11:35: #2 number of paired peaks: 98 WARNING @ Tue, 30 Jun 2020 02:11:35: Too few paired peaks (98) 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 02:11:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.05_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/SRX5431051/SRX5431051.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:11:37: 21000000 INFO @ Tue, 30 Jun 2020 02:11:38: 17000000 INFO @ Tue, 30 Jun 2020 02:11:42: 22000000 INFO @ Tue, 30 Jun 2020 02:11:43: 18000000 INFO @ Tue, 30 Jun 2020 02:11:47: 23000000 INFO @ Tue, 30 Jun 2020 02:11:48: 19000000 INFO @ Tue, 30 Jun 2020 02:11:52: 24000000 INFO @ Tue, 30 Jun 2020 02:11:53: 20000000 INFO @ Tue, 30 Jun 2020 02:11:58: 25000000 INFO @ Tue, 30 Jun 2020 02:11:58: 21000000 INFO @ Tue, 30 Jun 2020 02:12:02: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:12:02: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:12:02: #1 total tags in treatment: 12573612 INFO @ Tue, 30 Jun 2020 02:12:02: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:12:02: #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 02:12:02: #1 tags after filtering in treatment: 10978725 INFO @ Tue, 30 Jun 2020 02:12:02: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 30 Jun 2020 02:12:02: #1 finished! INFO @ Tue, 30 Jun 2020 02:12:02: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:12:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:12:03: #2 number of paired peaks: 98 WARNING @ Tue, 30 Jun 2020 02:12:03: Too few paired peaks (98) 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 02:12:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.10_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/SRX5431051/SRX5431051.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:12:04: 22000000 INFO @ Tue, 30 Jun 2020 02:12:09: 23000000 INFO @ Tue, 30 Jun 2020 02:12:14: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:12:19: 25000000 INFO @ Tue, 30 Jun 2020 02:12:23: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:12:23: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:12:23: #1 total tags in treatment: 12573612 INFO @ Tue, 30 Jun 2020 02:12:23: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:12:23: #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 02:12:23: #1 tags after filtering in treatment: 10978725 INFO @ Tue, 30 Jun 2020 02:12:23: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 30 Jun 2020 02:12:23: #1 finished! INFO @ Tue, 30 Jun 2020 02:12:23: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:12:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:12:24: #2 number of paired peaks: 98 WARNING @ Tue, 30 Jun 2020 02:12:24: Too few paired peaks (98) 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 02:12:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.20_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/SRX5431051/SRX5431051.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5431051/SRX5431051.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。