Job ID = 8069588 SRX = SRX7917391 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-08-08T03:38:04 prefetch.2.10.7: 1) Downloading 'SRR11312938'... 2020-08-08T03:38:04 prefetch.2.10.7: Downloading via HTTPS... 2020-08-08T03:38:33 prefetch.2.10.7: HTTPS download succeed 2020-08-08T03:38:34 prefetch.2.10.7: 'SRR11312938' is valid 2020-08-08T03:38:34 prefetch.2.10.7: 1) 'SRR11312938' was downloaded successfully Read 2826609 spots for SRR11312938/SRR11312938.sra Written 2826609 spots for SRR11312938/SRR11312938.sra fastq に変換しました。 bowtie でマッピング中... Your job 8070117 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:26 2826609 reads; of these: 2826609 (100.00%) were paired; of these: 509742 (18.03%) aligned concordantly 0 times 1771771 (62.68%) aligned concordantly exactly 1 time 545096 (19.28%) aligned concordantly >1 times ---- 509742 pairs aligned concordantly 0 times; of these: 203272 (39.88%) aligned discordantly 1 time ---- 306470 pairs aligned 0 times concordantly or discordantly; of these: 612940 mates make up the pairs; of these: 311715 (50.86%) aligned 0 times 141807 (23.14%) aligned exactly 1 time 159418 (26.01%) aligned >1 times 94.49% overall alignment rate Time searching: 00:05:26 Overall time: 00:05:26 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_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] 794693 / 2508785 = 0.3168 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 @ Sat, 08 Aug 2020 12:45:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.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 @ Sat, 08 Aug 2020 12:45:51: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:45:51: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:45:57: 1000000 INFO @ Sat, 08 Aug 2020 12:46:03: 2000000 INFO @ Sat, 08 Aug 2020 12:46:09: 3000000 INFO @ Sat, 08 Aug 2020 12:46:14: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 12:46:14: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 12:46:14: #1 total tags in treatment: 1540782 INFO @ Sat, 08 Aug 2020 12:46:14: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:46:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:46:14: #1 tags after filtering in treatment: 1214335 INFO @ Sat, 08 Aug 2020 12:46:14: #1 Redundant rate of treatment: 0.21 INFO @ Sat, 08 Aug 2020 12:46:14: #1 finished! INFO @ Sat, 08 Aug 2020 12:46:14: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:46:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:46:14: #2 number of paired peaks: 6 WARNING @ Sat, 08 Aug 2020 12:46:14: 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 @ Sat, 08 Aug 2020 12:46:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.05_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/SRX7917391/SRX7917391.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Sat, 08 Aug 2020 12:46:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.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 @ Sat, 08 Aug 2020 12:46:21: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:46:21: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:46:27: 1000000 INFO @ Sat, 08 Aug 2020 12:46:33: 2000000 INFO @ Sat, 08 Aug 2020 12:46:40: 3000000 INFO @ Sat, 08 Aug 2020 12:46:44: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 12:46:44: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 12:46:44: #1 total tags in treatment: 1540782 INFO @ Sat, 08 Aug 2020 12:46:44: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:46:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:46:44: #1 tags after filtering in treatment: 1214335 INFO @ Sat, 08 Aug 2020 12:46:44: #1 Redundant rate of treatment: 0.21 INFO @ Sat, 08 Aug 2020 12:46:44: #1 finished! INFO @ Sat, 08 Aug 2020 12:46:44: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:46:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:46:44: #2 number of paired peaks: 6 WARNING @ Sat, 08 Aug 2020 12:46:44: 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 @ Sat, 08 Aug 2020 12:46:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.10_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/SRX7917391/SRX7917391.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 @ Sat, 08 Aug 2020 12:46:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.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 @ Sat, 08 Aug 2020 12:46:51: #1 read tag files... INFO @ Sat, 08 Aug 2020 12:46:51: #1 read treatment tags... INFO @ Sat, 08 Aug 2020 12:46:57: 1000000 INFO @ Sat, 08 Aug 2020 12:47:03: 2000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 08 Aug 2020 12:47:09: 3000000 INFO @ Sat, 08 Aug 2020 12:47:14: #1 tag size is determined as 62 bps INFO @ Sat, 08 Aug 2020 12:47:14: #1 tag size = 62 INFO @ Sat, 08 Aug 2020 12:47:14: #1 total tags in treatment: 1540782 INFO @ Sat, 08 Aug 2020 12:47:14: #1 user defined the maximum tags... INFO @ Sat, 08 Aug 2020 12:47:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Aug 2020 12:47:14: #1 tags after filtering in treatment: 1214335 INFO @ Sat, 08 Aug 2020 12:47:14: #1 Redundant rate of treatment: 0.21 INFO @ Sat, 08 Aug 2020 12:47:14: #1 finished! INFO @ Sat, 08 Aug 2020 12:47:14: #2 Build Peak Model... INFO @ Sat, 08 Aug 2020 12:47:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Aug 2020 12:47:14: #2 number of paired peaks: 6 WARNING @ Sat, 08 Aug 2020 12:47:14: 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 @ Sat, 08 Aug 2020 12:47:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.20_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/SRX7917391/SRX7917391.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX7917391/SRX7917391.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling