Job ID = 6527735 SRX = SRX2592422 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:15:03 prefetch.2.10.7: 1) Downloading 'SRR5289699'... 2020-06-29T13:15:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:19:08 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:19:08 prefetch.2.10.7: 1) 'SRR5289699' was downloaded successfully Read 23911988 spots for SRR5289699/SRR5289699.sra Written 23911988 spots for SRR5289699/SRR5289699.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: 00:08:55 23911988 reads; of these: 23911988 (100.00%) were unpaired; of these: 1610440 (6.73%) aligned 0 times 16307279 (68.20%) aligned exactly 1 time 5994269 (25.07%) aligned >1 times 93.27% overall alignment rate Time searching: 00:08:55 Overall time: 00:08:55 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 12 files... [bam_rmdupse_core] 4656449 / 22301548 = 0.2088 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 @ Mon, 29 Jun 2020 22:40:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.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 @ Mon, 29 Jun 2020 22:40:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:40:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:40:30: 1000000 INFO @ Mon, 29 Jun 2020 22:40:36: 2000000 INFO @ Mon, 29 Jun 2020 22:40:42: 3000000 INFO @ Mon, 29 Jun 2020 22:40:47: 4000000 INFO @ Mon, 29 Jun 2020 22:40:53: 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 @ Mon, 29 Jun 2020 22:40:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.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 @ Mon, 29 Jun 2020 22:40:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:40:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:40:59: 6000000 INFO @ Mon, 29 Jun 2020 22:41:01: 1000000 INFO @ Mon, 29 Jun 2020 22:41:05: 7000000 INFO @ Mon, 29 Jun 2020 22:41:07: 2000000 INFO @ Mon, 29 Jun 2020 22:41:11: 8000000 INFO @ Mon, 29 Jun 2020 22:41:13: 3000000 INFO @ Mon, 29 Jun 2020 22:41:18: 9000000 INFO @ Mon, 29 Jun 2020 22:41:20: 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 @ Mon, 29 Jun 2020 22:41:24: 10000000 INFO @ Mon, 29 Jun 2020 22:41:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.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 @ Mon, 29 Jun 2020 22:41:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:41:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:41:26: 5000000 INFO @ Mon, 29 Jun 2020 22:41:31: 11000000 INFO @ Mon, 29 Jun 2020 22:41:32: 1000000 INFO @ Mon, 29 Jun 2020 22:41:33: 6000000 INFO @ Mon, 29 Jun 2020 22:41:37: 12000000 INFO @ Mon, 29 Jun 2020 22:41:40: 7000000 INFO @ Mon, 29 Jun 2020 22:41:40: 2000000 INFO @ Mon, 29 Jun 2020 22:41:44: 13000000 INFO @ Mon, 29 Jun 2020 22:41:47: 8000000 INFO @ Mon, 29 Jun 2020 22:41:47: 3000000 INFO @ Mon, 29 Jun 2020 22:41:51: 14000000 INFO @ Mon, 29 Jun 2020 22:41:53: 9000000 INFO @ Mon, 29 Jun 2020 22:41:55: 4000000 INFO @ Mon, 29 Jun 2020 22:41:58: 15000000 INFO @ Mon, 29 Jun 2020 22:42:00: 10000000 INFO @ Mon, 29 Jun 2020 22:42:02: 5000000 INFO @ Mon, 29 Jun 2020 22:42:04: 16000000 INFO @ Mon, 29 Jun 2020 22:42:07: 11000000 INFO @ Mon, 29 Jun 2020 22:42:10: 6000000 INFO @ Mon, 29 Jun 2020 22:42:11: 17000000 INFO @ Mon, 29 Jun 2020 22:42:13: 12000000 INFO @ Mon, 29 Jun 2020 22:42:15: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:42:15: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:42:15: #1 total tags in treatment: 17645099 INFO @ Mon, 29 Jun 2020 22:42:15: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:42:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:42:15: #1 tags after filtering in treatment: 17645099 INFO @ Mon, 29 Jun 2020 22:42:15: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:42:15: #1 finished! INFO @ Mon, 29 Jun 2020 22:42:15: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:42:15: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:42:17: #2 number of paired peaks: 74 WARNING @ Mon, 29 Jun 2020 22:42:17: Too few paired peaks (74) 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 @ Mon, 29 Jun 2020 22:42:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.05_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/SRX2592422/SRX2592422.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:42:17: 7000000 INFO @ Mon, 29 Jun 2020 22:42:20: 13000000 INFO @ Mon, 29 Jun 2020 22:42:25: 8000000 INFO @ Mon, 29 Jun 2020 22:42:27: 14000000 INFO @ Mon, 29 Jun 2020 22:42:32: 9000000 INFO @ Mon, 29 Jun 2020 22:42:33: 15000000 INFO @ Mon, 29 Jun 2020 22:42:40: 16000000 INFO @ Mon, 29 Jun 2020 22:42:40: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:42:46: 17000000 INFO @ Mon, 29 Jun 2020 22:42:47: 11000000 INFO @ Mon, 29 Jun 2020 22:42:51: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:42:51: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:42:51: #1 total tags in treatment: 17645099 INFO @ Mon, 29 Jun 2020 22:42:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:42:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:42:51: #1 tags after filtering in treatment: 17645099 INFO @ Mon, 29 Jun 2020 22:42:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:42:51: #1 finished! INFO @ Mon, 29 Jun 2020 22:42:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:42:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:42:52: #2 number of paired peaks: 74 WARNING @ Mon, 29 Jun 2020 22:42:52: Too few paired peaks (74) 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 @ Mon, 29 Jun 2020 22:42:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.10_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/SRX2592422/SRX2592422.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:42:55: 12000000 INFO @ Mon, 29 Jun 2020 22:43:02: 13000000 INFO @ Mon, 29 Jun 2020 22:43:09: 14000000 INFO @ Mon, 29 Jun 2020 22:43:16: 15000000 BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 22:43:23: 16000000 INFO @ Mon, 29 Jun 2020 22:43:30: 17000000 INFO @ Mon, 29 Jun 2020 22:43:34: #1 tag size is determined as 50 bps INFO @ Mon, 29 Jun 2020 22:43:34: #1 tag size = 50 INFO @ Mon, 29 Jun 2020 22:43:34: #1 total tags in treatment: 17645099 INFO @ Mon, 29 Jun 2020 22:43:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:43:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 22:43:35: #1 tags after filtering in treatment: 17645099 INFO @ Mon, 29 Jun 2020 22:43:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:43:35: #1 finished! INFO @ Mon, 29 Jun 2020 22:43:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:43:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:43:36: #2 number of paired peaks: 74 WARNING @ Mon, 29 Jun 2020 22:43:36: Too few paired peaks (74) 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 @ Mon, 29 Jun 2020 22:43:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.20_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/SRX2592422/SRX2592422.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2592422/SRX2592422.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling