Job ID = 6528146 SRX = SRX4798858 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:29:36 prefetch.2.10.7: 1) Downloading 'SRR7965211'... 2020-06-29T14:29:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:40:40 prefetch.2.10.7: HTTPS download failed 2020-06-29T14:40:40 prefetch.2.10.7: 1) failed to download SRR7965211 2020-06-29T14:40:53 prefetch.2.10.7: 1) Downloading 'SRR7965211'... 2020-06-29T14:40:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:40:53 prefetch.2.10.7: Continue download of 'SRR7965211' from 526967034 2020-06-29T14:41:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:41:03 prefetch.2.10.7: 'SRR7965211' is valid 2020-06-29T14:41:03 prefetch.2.10.7: 1) 'SRR7965211' was downloaded successfully Read 16089303 spots for SRR7965211/SRR7965211.sra Written 16089303 spots for SRR7965211/SRR7965211.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: 00:03:42 16089303 reads; of these: 16089303 (100.00%) were unpaired; of these: 1932002 (12.01%) aligned 0 times 12741237 (79.19%) aligned exactly 1 time 1416064 (8.80%) aligned >1 times 87.99% overall alignment rate Time searching: 00:03:42 Overall time: 00:03:42 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 8 files... [bam_rmdupse_core] 1238270 / 14157301 = 0.0875 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 23:53:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.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 23:53:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:53:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:53:12: 1000000 INFO @ Mon, 29 Jun 2020 23:53:17: 2000000 INFO @ Mon, 29 Jun 2020 23:53:21: 3000000 INFO @ Mon, 29 Jun 2020 23:53:26: 4000000 INFO @ Mon, 29 Jun 2020 23:53:31: 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 23:53:36: 6000000 INFO @ Mon, 29 Jun 2020 23:53:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.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 23:53:37: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:53:37: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:53:40: 7000000 INFO @ Mon, 29 Jun 2020 23:53:42: 1000000 INFO @ Mon, 29 Jun 2020 23:53:45: 8000000 INFO @ Mon, 29 Jun 2020 23:53:47: 2000000 INFO @ Mon, 29 Jun 2020 23:53:50: 9000000 INFO @ Mon, 29 Jun 2020 23:53:51: 3000000 INFO @ Mon, 29 Jun 2020 23:53:55: 10000000 INFO @ Mon, 29 Jun 2020 23:53:56: 4000000 INFO @ Mon, 29 Jun 2020 23:53:59: 11000000 INFO @ Mon, 29 Jun 2020 23:54:01: 5000000 INFO @ Mon, 29 Jun 2020 23:54:04: 12000000 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 23:54:06: 6000000 INFO @ Mon, 29 Jun 2020 23:54:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.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 23:54:07: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:54:07: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:54:09: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:54:09: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:54:09: #1 total tags in treatment: 12919031 INFO @ Mon, 29 Jun 2020 23:54:09: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:54:09: #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 23:54:09: #1 tags after filtering in treatment: 12919031 INFO @ Mon, 29 Jun 2020 23:54:09: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:54:09: #1 finished! INFO @ Mon, 29 Jun 2020 23:54:09: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:54:09: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:54:10: #2 number of paired peaks: 64 WARNING @ Mon, 29 Jun 2020 23:54:10: Too few paired peaks (64) 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 23:54:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.05_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/SRX4798858/SRX4798858.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:54:11: 7000000 INFO @ Mon, 29 Jun 2020 23:54:13: 1000000 INFO @ Mon, 29 Jun 2020 23:54:15: 8000000 INFO @ Mon, 29 Jun 2020 23:54:18: 2000000 INFO @ Mon, 29 Jun 2020 23:54:20: 9000000 INFO @ Mon, 29 Jun 2020 23:54:24: 3000000 INFO @ Mon, 29 Jun 2020 23:54:25: 10000000 INFO @ Mon, 29 Jun 2020 23:54:29: 4000000 INFO @ Mon, 29 Jun 2020 23:54:30: 11000000 INFO @ Mon, 29 Jun 2020 23:54:34: 5000000 INFO @ Mon, 29 Jun 2020 23:54:35: 12000000 INFO @ Mon, 29 Jun 2020 23:54:39: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:54:39: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:54:39: #1 total tags in treatment: 12919031 INFO @ Mon, 29 Jun 2020 23:54:39: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:54:39: #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 23:54:39: #1 tags after filtering in treatment: 12919031 INFO @ Mon, 29 Jun 2020 23:54:39: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:54:39: #1 finished! INFO @ Mon, 29 Jun 2020 23:54:39: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:54:39: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:54:40: 6000000 INFO @ Mon, 29 Jun 2020 23:54:40: #2 number of paired peaks: 64 WARNING @ Mon, 29 Jun 2020 23:54:40: Too few paired peaks (64) 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 23:54:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.10_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/SRX4798858/SRX4798858.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:54:45: 7000000 INFO @ Mon, 29 Jun 2020 23:54:51: 8000000 INFO @ Mon, 29 Jun 2020 23:54:56: 9000000 INFO @ Mon, 29 Jun 2020 23:55:01: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:55:07: 11000000 INFO @ Mon, 29 Jun 2020 23:55:12: 12000000 INFO @ Mon, 29 Jun 2020 23:55:18: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:55:18: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:55:18: #1 total tags in treatment: 12919031 INFO @ Mon, 29 Jun 2020 23:55:18: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:55:18: #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 23:55:18: #1 tags after filtering in treatment: 12919031 INFO @ Mon, 29 Jun 2020 23:55:18: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:55:18: #1 finished! INFO @ Mon, 29 Jun 2020 23:55:18: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:55:18: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:55:19: #2 number of paired peaks: 64 WARNING @ Mon, 29 Jun 2020 23:55:19: Too few paired peaks (64) 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 23:55:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.20_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/SRX4798858/SRX4798858.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4798858/SRX4798858.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。