Job ID = 6527540 SRX = SRX1084158 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T12:36:52 prefetch.2.10.7: 1) Downloading 'SRR2088904'... 2020-06-29T12:36:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T12:41:01 prefetch.2.10.7: HTTPS download succeed 2020-06-29T12:41:01 prefetch.2.10.7: 1) 'SRR2088904' was downloaded successfully Read 21976820 spots for SRR2088904/SRR2088904.sra Written 21976820 spots for SRR2088904/SRR2088904.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: 00:06:00 21976820 reads; of these: 21976820 (100.00%) were unpaired; of these: 2207762 (10.05%) aligned 0 times 15875149 (72.24%) aligned exactly 1 time 3893909 (17.72%) aligned >1 times 89.95% overall alignment rate Time searching: 00:06:00 Overall time: 00:06:00 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] 1942800 / 19769058 = 0.0983 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 22:01:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.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 22:01:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:01:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:01:35: 1000000 INFO @ Mon, 29 Jun 2020 22:01:41: 2000000 INFO @ Mon, 29 Jun 2020 22:01:48: 3000000 INFO @ Mon, 29 Jun 2020 22:01:55: 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 @ Mon, 29 Jun 2020 22:01:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.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 22:01:59: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:01:59: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:02:01: 5000000 INFO @ Mon, 29 Jun 2020 22:02:07: 1000000 INFO @ Mon, 29 Jun 2020 22:02:08: 6000000 INFO @ Mon, 29 Jun 2020 22:02:14: 2000000 INFO @ Mon, 29 Jun 2020 22:02:16: 7000000 INFO @ Mon, 29 Jun 2020 22:02:21: 3000000 INFO @ Mon, 29 Jun 2020 22:02:23: 8000000 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 22:02:28: 4000000 INFO @ Mon, 29 Jun 2020 22:02:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.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 22:02:29: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:02:29: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:02:30: 9000000 INFO @ Mon, 29 Jun 2020 22:02:36: 5000000 INFO @ Mon, 29 Jun 2020 22:02:37: 10000000 INFO @ Mon, 29 Jun 2020 22:02:38: 1000000 INFO @ Mon, 29 Jun 2020 22:02:43: 6000000 INFO @ Mon, 29 Jun 2020 22:02:44: 11000000 INFO @ Mon, 29 Jun 2020 22:02:47: 2000000 INFO @ Mon, 29 Jun 2020 22:02:50: 7000000 INFO @ Mon, 29 Jun 2020 22:02:51: 12000000 INFO @ Mon, 29 Jun 2020 22:02:54: 3000000 INFO @ Mon, 29 Jun 2020 22:02:58: 8000000 INFO @ Mon, 29 Jun 2020 22:02:59: 13000000 INFO @ Mon, 29 Jun 2020 22:03:02: 4000000 INFO @ Mon, 29 Jun 2020 22:03:05: 9000000 INFO @ Mon, 29 Jun 2020 22:03:06: 14000000 INFO @ Mon, 29 Jun 2020 22:03:09: 5000000 INFO @ Mon, 29 Jun 2020 22:03:12: 10000000 INFO @ Mon, 29 Jun 2020 22:03:13: 15000000 INFO @ Mon, 29 Jun 2020 22:03:16: 6000000 INFO @ Mon, 29 Jun 2020 22:03:20: 11000000 INFO @ Mon, 29 Jun 2020 22:03:21: 16000000 INFO @ Mon, 29 Jun 2020 22:03:24: 7000000 INFO @ Mon, 29 Jun 2020 22:03:28: 12000000 INFO @ Mon, 29 Jun 2020 22:03:28: 17000000 INFO @ Mon, 29 Jun 2020 22:03:32: 8000000 INFO @ Mon, 29 Jun 2020 22:03:34: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:03:34: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:03:34: #1 total tags in treatment: 17826258 INFO @ Mon, 29 Jun 2020 22:03:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:03:34: #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 22:03:35: #1 tags after filtering in treatment: 17826258 INFO @ Mon, 29 Jun 2020 22:03:35: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:03:35: #1 finished! INFO @ Mon, 29 Jun 2020 22:03:35: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:03:35: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:03:35: 13000000 INFO @ Mon, 29 Jun 2020 22:03:36: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 22:03:36: Too few paired peaks (6) 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 22:03:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.05_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/SRX1084158/SRX1084158.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:03:40: 9000000 INFO @ Mon, 29 Jun 2020 22:03:42: 14000000 INFO @ Mon, 29 Jun 2020 22:03:47: 10000000 INFO @ Mon, 29 Jun 2020 22:03:49: 15000000 INFO @ Mon, 29 Jun 2020 22:03:56: 11000000 INFO @ Mon, 29 Jun 2020 22:03:56: 16000000 INFO @ Mon, 29 Jun 2020 22:04:03: 12000000 INFO @ Mon, 29 Jun 2020 22:04:04: 17000000 INFO @ Mon, 29 Jun 2020 22:04:10: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:04:10: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:04:10: #1 total tags in treatment: 17826258 INFO @ Mon, 29 Jun 2020 22:04:10: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:04:10: #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 22:04:10: 13000000 INFO @ Mon, 29 Jun 2020 22:04:10: #1 tags after filtering in treatment: 17826258 INFO @ Mon, 29 Jun 2020 22:04:10: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:04:10: #1 finished! INFO @ Mon, 29 Jun 2020 22:04:10: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:04:10: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:04:11: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 22:04:11: Too few paired peaks (6) 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 22:04:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.10_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/SRX1084158/SRX1084158.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:04:17: 14000000 INFO @ Mon, 29 Jun 2020 22:04:24: 15000000 INFO @ Mon, 29 Jun 2020 22:04:30: 16000000 INFO @ Mon, 29 Jun 2020 22:04:37: 17000000 INFO @ Mon, 29 Jun 2020 22:04:43: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 22:04:43: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 22:04:43: #1 total tags in treatment: 17826258 INFO @ Mon, 29 Jun 2020 22:04:43: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:04:43: #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 22:04:43: #1 tags after filtering in treatment: 17826258 INFO @ Mon, 29 Jun 2020 22:04:43: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:04:43: #1 finished! INFO @ Mon, 29 Jun 2020 22:04:43: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:04:43: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:04:44: #2 number of paired peaks: 6 WARNING @ Mon, 29 Jun 2020 22:04:44: Too few paired peaks (6) 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 22:04:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.20_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/SRX1084158/SRX1084158.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1084158/SRX1084158.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。