Job ID = 6528409 SRX = SRX5865771 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-29T14:54:29 prefetch.2.10.7: 1) Downloading 'SRR9090622'... 2020-06-29T14:54:29 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:09:50 prefetch.2.10.7: HTTPS download failed 2020-06-29T15:09:50 prefetch.2.10.7: 1) failed to download SRR9090622 2020-06-29T15:10:01 prefetch.2.10.7: 1) Downloading 'SRR9090622'... 2020-06-29T15:10:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:10:01 prefetch.2.10.7: Continue download of 'SRR9090622' from 1626795749 2020-06-29T15:10:09 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:10:09 prefetch.2.10.7: 1) 'SRR9090622' was downloaded successfully Read 26158151 spots for SRR9090622/SRR9090622.sra Written 26158151 spots for SRR9090622/SRR9090622.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: 00:47:54 26158151 reads; of these: 26158151 (100.00%) were paired; of these: 4766166 (18.22%) aligned concordantly 0 times 15434771 (59.01%) aligned concordantly exactly 1 time 5957214 (22.77%) aligned concordantly >1 times ---- 4766166 pairs aligned concordantly 0 times; of these: 492808 (10.34%) aligned discordantly 1 time ---- 4273358 pairs aligned 0 times concordantly or discordantly; of these: 8546716 mates make up the pairs; of these: 7490172 (87.64%) aligned 0 times 597542 (6.99%) aligned exactly 1 time 459002 (5.37%) aligned >1 times 85.68% overall alignment rate Time searching: 00:47:54 Overall time: 00:47:54 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] 1723551 / 21790989 = 0.0791 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 01:31:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.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 01:31:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:31:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:31:11: 1000000 INFO @ Tue, 30 Jun 2020 01:31:18: 2000000 INFO @ Tue, 30 Jun 2020 01:31:24: 3000000 INFO @ Tue, 30 Jun 2020 01:31:30: 4000000 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 01:31:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.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 01:31:35: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:31:35: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:31:36: 5000000 INFO @ Tue, 30 Jun 2020 01:31:41: 1000000 INFO @ Tue, 30 Jun 2020 01:31:42: 6000000 INFO @ Tue, 30 Jun 2020 01:31:48: 2000000 INFO @ Tue, 30 Jun 2020 01:31:48: 7000000 INFO @ Tue, 30 Jun 2020 01:31:54: 3000000 INFO @ Tue, 30 Jun 2020 01:31:55: 8000000 INFO @ Tue, 30 Jun 2020 01:32:00: 4000000 INFO @ Tue, 30 Jun 2020 01:32:01: 9000000 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 01:32:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.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 01:32:05: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:32:05: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:32:06: 5000000 INFO @ Tue, 30 Jun 2020 01:32:07: 10000000 INFO @ Tue, 30 Jun 2020 01:32:12: 1000000 INFO @ Tue, 30 Jun 2020 01:32:13: 6000000 INFO @ Tue, 30 Jun 2020 01:32:14: 11000000 INFO @ Tue, 30 Jun 2020 01:32:18: 2000000 INFO @ Tue, 30 Jun 2020 01:32:19: 7000000 INFO @ Tue, 30 Jun 2020 01:32:20: 12000000 INFO @ Tue, 30 Jun 2020 01:32:24: 3000000 INFO @ Tue, 30 Jun 2020 01:32:25: 8000000 INFO @ Tue, 30 Jun 2020 01:32:27: 13000000 INFO @ Tue, 30 Jun 2020 01:32:30: 4000000 INFO @ Tue, 30 Jun 2020 01:32:32: 9000000 INFO @ Tue, 30 Jun 2020 01:32:33: 14000000 INFO @ Tue, 30 Jun 2020 01:32:37: 5000000 INFO @ Tue, 30 Jun 2020 01:32:38: 10000000 INFO @ Tue, 30 Jun 2020 01:32:39: 15000000 INFO @ Tue, 30 Jun 2020 01:32:43: 6000000 INFO @ Tue, 30 Jun 2020 01:32:44: 11000000 INFO @ Tue, 30 Jun 2020 01:32:46: 16000000 INFO @ Tue, 30 Jun 2020 01:32:49: 7000000 INFO @ Tue, 30 Jun 2020 01:32:50: 12000000 INFO @ Tue, 30 Jun 2020 01:32:52: 17000000 INFO @ Tue, 30 Jun 2020 01:32:56: 8000000 INFO @ Tue, 30 Jun 2020 01:32:57: 13000000 INFO @ Tue, 30 Jun 2020 01:32:58: 18000000 INFO @ Tue, 30 Jun 2020 01:33:02: 9000000 INFO @ Tue, 30 Jun 2020 01:33:03: 14000000 INFO @ Tue, 30 Jun 2020 01:33:05: 19000000 INFO @ Tue, 30 Jun 2020 01:33:09: 10000000 INFO @ Tue, 30 Jun 2020 01:33:10: 15000000 INFO @ Tue, 30 Jun 2020 01:33:11: 20000000 INFO @ Tue, 30 Jun 2020 01:33:15: 11000000 INFO @ Tue, 30 Jun 2020 01:33:16: 16000000 INFO @ Tue, 30 Jun 2020 01:33:18: 21000000 INFO @ Tue, 30 Jun 2020 01:33:22: 12000000 INFO @ Tue, 30 Jun 2020 01:33:23: 17000000 INFO @ Tue, 30 Jun 2020 01:33:24: 22000000 INFO @ Tue, 30 Jun 2020 01:33:28: 13000000 INFO @ Tue, 30 Jun 2020 01:33:29: 18000000 INFO @ Tue, 30 Jun 2020 01:33:31: 23000000 INFO @ Tue, 30 Jun 2020 01:33:35: 14000000 INFO @ Tue, 30 Jun 2020 01:33:36: 19000000 INFO @ Tue, 30 Jun 2020 01:33:37: 24000000 INFO @ Tue, 30 Jun 2020 01:33:41: 15000000 INFO @ Tue, 30 Jun 2020 01:33:42: 20000000 INFO @ Tue, 30 Jun 2020 01:33:44: 25000000 INFO @ Tue, 30 Jun 2020 01:33:48: 16000000 INFO @ Tue, 30 Jun 2020 01:33:49: 21000000 INFO @ Tue, 30 Jun 2020 01:33:51: 26000000 INFO @ Tue, 30 Jun 2020 01:33:54: 17000000 INFO @ Tue, 30 Jun 2020 01:33:55: 22000000 INFO @ Tue, 30 Jun 2020 01:33:57: 27000000 INFO @ Tue, 30 Jun 2020 01:34:01: 18000000 INFO @ Tue, 30 Jun 2020 01:34:02: 23000000 INFO @ Tue, 30 Jun 2020 01:34:04: 28000000 INFO @ Tue, 30 Jun 2020 01:34:07: 19000000 INFO @ Tue, 30 Jun 2020 01:34:08: 24000000 INFO @ Tue, 30 Jun 2020 01:34:11: 29000000 INFO @ Tue, 30 Jun 2020 01:34:14: 20000000 INFO @ Tue, 30 Jun 2020 01:34:15: 25000000 INFO @ Tue, 30 Jun 2020 01:34:18: 30000000 INFO @ Tue, 30 Jun 2020 01:34:21: 21000000 INFO @ Tue, 30 Jun 2020 01:34:21: 26000000 INFO @ Tue, 30 Jun 2020 01:34:25: 31000000 INFO @ Tue, 30 Jun 2020 01:34:27: 22000000 INFO @ Tue, 30 Jun 2020 01:34:28: 27000000 INFO @ Tue, 30 Jun 2020 01:34:32: 32000000 INFO @ Tue, 30 Jun 2020 01:34:34: 23000000 INFO @ Tue, 30 Jun 2020 01:34:34: 28000000 INFO @ Tue, 30 Jun 2020 01:34:38: 33000000 INFO @ Tue, 30 Jun 2020 01:34:40: 24000000 INFO @ Tue, 30 Jun 2020 01:34:40: 29000000 INFO @ Tue, 30 Jun 2020 01:34:45: 34000000 INFO @ Tue, 30 Jun 2020 01:34:47: 25000000 INFO @ Tue, 30 Jun 2020 01:34:47: 30000000 INFO @ Tue, 30 Jun 2020 01:34:51: 35000000 INFO @ Tue, 30 Jun 2020 01:34:53: 26000000 INFO @ Tue, 30 Jun 2020 01:34:53: 31000000 INFO @ Tue, 30 Jun 2020 01:34:58: 36000000 INFO @ Tue, 30 Jun 2020 01:35:00: 27000000 INFO @ Tue, 30 Jun 2020 01:35:00: 32000000 INFO @ Tue, 30 Jun 2020 01:35:04: 37000000 INFO @ Tue, 30 Jun 2020 01:35:06: 28000000 INFO @ Tue, 30 Jun 2020 01:35:06: 33000000 INFO @ Tue, 30 Jun 2020 01:35:11: 38000000 INFO @ Tue, 30 Jun 2020 01:35:12: 29000000 INFO @ Tue, 30 Jun 2020 01:35:13: 34000000 INFO @ Tue, 30 Jun 2020 01:35:17: 39000000 INFO @ Tue, 30 Jun 2020 01:35:19: 30000000 INFO @ Tue, 30 Jun 2020 01:35:19: 35000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:35:24: 40000000 INFO @ Tue, 30 Jun 2020 01:35:25: 31000000 INFO @ Tue, 30 Jun 2020 01:35:25: 36000000 INFO @ Tue, 30 Jun 2020 01:35:31: 41000000 INFO @ Tue, 30 Jun 2020 01:35:32: 32000000 INFO @ Tue, 30 Jun 2020 01:35:32: 37000000 INFO @ Tue, 30 Jun 2020 01:35:33: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:35:33: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:35:33: #1 total tags in treatment: 19702371 INFO @ Tue, 30 Jun 2020 01:35:33: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:35:33: #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 01:35:34: #1 tags after filtering in treatment: 16716852 INFO @ Tue, 30 Jun 2020 01:35:34: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 30 Jun 2020 01:35:34: #1 finished! INFO @ Tue, 30 Jun 2020 01:35:34: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:35:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:35:35: #2 number of paired peaks: 8 WARNING @ Tue, 30 Jun 2020 01:35:35: Too few paired peaks (8) 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 01:35:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.05_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/SRX5865771/SRX5865771.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:35:38: 33000000 INFO @ Tue, 30 Jun 2020 01:35:38: 38000000 INFO @ Tue, 30 Jun 2020 01:35:45: 39000000 INFO @ Tue, 30 Jun 2020 01:35:45: 34000000 INFO @ Tue, 30 Jun 2020 01:35:51: 40000000 INFO @ Tue, 30 Jun 2020 01:35:51: 35000000 INFO @ Tue, 30 Jun 2020 01:35:57: 41000000 INFO @ Tue, 30 Jun 2020 01:35:58: 36000000 INFO @ Tue, 30 Jun 2020 01:36:00: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:36:00: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:36:00: #1 total tags in treatment: 19702371 INFO @ Tue, 30 Jun 2020 01:36:00: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:36:00: #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 01:36:00: #1 tags after filtering in treatment: 16716852 INFO @ Tue, 30 Jun 2020 01:36:00: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 30 Jun 2020 01:36:00: #1 finished! INFO @ Tue, 30 Jun 2020 01:36:00: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:36:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:36:01: #2 number of paired peaks: 8 WARNING @ Tue, 30 Jun 2020 01:36:01: Too few paired peaks (8) 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 01:36:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.10_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/SRX5865771/SRX5865771.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:36:04: 37000000 INFO @ Tue, 30 Jun 2020 01:36:10: 38000000 INFO @ Tue, 30 Jun 2020 01:36:16: 39000000 INFO @ Tue, 30 Jun 2020 01:36:22: 40000000 INFO @ Tue, 30 Jun 2020 01:36:27: 41000000 INFO @ Tue, 30 Jun 2020 01:36:30: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:36:30: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:36:30: #1 total tags in treatment: 19702371 INFO @ Tue, 30 Jun 2020 01:36:30: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:36:30: #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 01:36:30: #1 tags after filtering in treatment: 16716852 INFO @ Tue, 30 Jun 2020 01:36:30: #1 Redundant rate of treatment: 0.15 INFO @ Tue, 30 Jun 2020 01:36:30: #1 finished! INFO @ Tue, 30 Jun 2020 01:36:30: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:36:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:36:32: #2 number of paired peaks: 8 WARNING @ Tue, 30 Jun 2020 01:36:32: Too few paired peaks (8) 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 01:36:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.20_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/SRX5865771/SRX5865771.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5865771/SRX5865771.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。