2021-06-10 04:27:24 [INFO] Starting.
2021-06-10 04:27:24 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-06-10 04:27:24 [INFO] Creating new aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-06-10 04:27:24 [INFO] Using chromosome sizes at /grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes
2021-06-10 04:27:24 [INFO] Using only main chromosomes: chr1, chr2, chr3, chr4, chr5, chr6, chr7, chrX, chr8, chr9, chr11, chr10, chr12, chr13, chr14, chr15, chr16, chr17, chr18, chr20, chr19, chrY, chr22, chr21, chrM
2021-06-10 04:27:25 [INFO] Building aggregate.
2021-06-10 04:27:25 [INFO] Writing every 10 Runs.
2021-06-10 04:27:25 [INFO] Processing SRX2821667. (1/2)
2021-06-10 04:27:25 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-06-10 04:28:05 [INFO] Processing SRX2821666. (2/2)
2021-06-10 04:28:05 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-06-10 04:28:26 [INFO] Writing to disk...
2021-06-10 04:28:33 [INFO] Finished.
2021-08-02 17:08:55 [INFO] Starting.
2021-08-02 17:08:56 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-08-02 17:08:56 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-08-02 17:08:56 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-02 17:08:56 [INFO] Building aggregate for 1bp_raw network.
2021-08-02 17:08:56 [INFO] Writing every 10 Runs.
2021-08-02 17:08:56 [INFO] Processing SRX2821667. (1/2)
2021-08-02 17:08:56 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-08-02 18:07:35 [INFO] Processing SRX2821666. (2/2)
2021-08-02 18:07:35 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-08-02 18:14:53 [ERROR] Adding SRR5558500:chr15_vs_chr3 to in memory aggregate failed. Error message:
Traceback (most recent call last):
  File "/grid/gillis/data/nfox/hi_c_data_processing/software/aggregate.py", line 428, in add_dataset
    aggregate_data[c] = aggregate_data[c] + net
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/base.py", line 415, in __add__
    return self._add_sparse(other)
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/compressed.py", line 359, in _add_sparse
    return self._binopt(other, '_plus_')
  File "/grid/gillis/home/nfox/software/miniconda3/lib/python3.8/site-packages/scipy/sparse/compressed.py", line 1226, in _binopt
    indptr = np.empty(self.indptr.shape, dtype=idx_dtype)
MemoryError: Unable to allocate 389. MiB for an array with shape (101991190,) and data type int32

2021-08-04 22:17:08 [INFO] Starting.
2021-08-04 22:17:08 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-08-04 22:17:08 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-08-04 22:17:08 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-04 22:17:09 [INFO] Building aggregate for 1bp_raw network.
2021-08-04 22:17:09 [INFO] Writing every 10 Runs.
2021-08-04 22:17:09 [INFO] Processing SRX2821667. (1/2)
2021-08-04 22:17:09 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-08-04 22:20:48 [INFO] Processing SRX2821666. (2/2)
2021-08-04 22:20:48 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-08-04 22:28:32 [INFO] Writing to disk...
2021-08-04 22:29:49 [INFO] Finished.
2021-08-12 14:34:36 [INFO] Starting.
2021-08-12 14:34:36 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-08-12 14:34:36 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-08-12 14:34:36 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 14:34:37 [INFO] Building aggregate for 40kbp_raw network.
2021-08-12 14:34:37 [INFO] Writing every 10 Runs.
2021-08-12 14:34:37 [INFO] Processing SRX2821667. (1/2)
2021-08-12 14:34:37 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-08-12 14:35:11 [INFO] Processing SRX2821666. (2/2)
2021-08-12 14:35:11 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-08-12 14:35:47 [INFO] Writing to disk...
2021-08-12 14:35:54 [INFO] Finished.
2021-08-12 15:13:05 [INFO] Starting.
2021-08-12 15:13:05 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-08-12 15:13:05 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-08-12 15:13:05 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 15:13:06 [INFO] Building aggregate for 25kbp_raw network.
2021-08-12 15:13:06 [INFO] Writing every 10 Runs.
2021-08-12 15:13:06 [INFO] Processing SRX2821667. (1/2)
2021-08-12 15:13:06 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-08-12 15:13:46 [INFO] Processing SRX2821666. (2/2)
2021-08-12 15:13:46 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-08-12 15:14:18 [INFO] Writing to disk...
2021-08-12 15:14:26 [INFO] Finished.
2021-08-12 15:48:10 [INFO] Starting.
2021-08-12 15:48:10 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-08-12 15:48:10 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-08-12 15:48:10 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 15:48:11 [INFO] Building aggregate for 5kbp_raw network.
2021-08-12 15:48:11 [INFO] Writing every 10 Runs.
2021-08-12 15:48:11 [INFO] Processing SRX2821667. (1/2)
2021-08-12 15:48:11 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-08-12 15:48:57 [INFO] Processing SRX2821666. (2/2)
2021-08-12 15:48:57 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-08-12 15:49:45 [INFO] Writing to disk...
2021-08-12 15:49:56 [INFO] Finished.
2021-08-12 16:36:58 [INFO] Starting.
2021-08-12 16:36:58 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-08-12 16:36:58 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-08-12 16:36:58 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-12 16:36:59 [INFO] Building aggregate for 1kbp_raw network.
2021-08-12 16:36:59 [INFO] Writing every 10 Runs.
2021-08-12 16:36:59 [INFO] Processing SRX2821667. (1/2)
2021-08-12 16:36:59 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-08-12 16:37:48 [INFO] Processing SRX2821666. (2/2)
2021-08-12 16:37:48 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-08-12 16:38:40 [INFO] Writing to disk...
2021-08-12 16:38:53 [INFO] Finished.
2021-08-20 18:04:57 [INFO] Starting.
2021-08-20 18:04:57 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-08-20 18:04:57 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-08-20 18:04:57 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-20 18:04:58 [INFO] Building aggregate for 100kbp_raw network.
2021-08-20 18:04:58 [INFO] Writing every 10 Runs.
2021-08-20 18:04:58 [INFO] Processing SRX2821667. (1/2)
2021-08-20 18:04:58 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-08-20 18:05:44 [INFO] Processing SRX2821666. (2/2)
2021-08-20 18:05:44 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-08-20 18:06:08 [INFO] Writing to disk...
2021-08-20 18:06:12 [INFO] Finished.
2021-08-23 11:31:39 [INFO] Starting.
2021-08-23 11:31:39 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-08-23 11:31:39 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-08-23 11:31:39 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-23 11:31:40 [INFO] Building aggregate for 250kbp_raw network.
2021-08-23 11:31:40 [INFO] Writing every 10 Runs.
2021-08-23 11:31:40 [INFO] Processing SRX2821667. (1/2)
2021-08-23 11:31:40 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-08-23 11:31:55 [INFO] Processing SRX2821666. (2/2)
2021-08-23 11:31:55 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-08-23 11:32:09 [INFO] Writing to disk...
2021-08-23 11:32:10 [INFO] Finished.
2021-08-23 13:17:30 [INFO] Starting.
2021-08-23 13:17:30 [INFO] Processing /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/
2021-08-23 13:17:30 [INFO] Appending to existing aggregate : /grid/gillis/data/nfox/hi_c_data_processing/data_human/SRP107176/aggregate.hdf5
2021-08-23 13:17:30 [WARNING] chroms=/grid/gillis/data/nfox/genomes/homo_sapiens_38/hg38.chrom.sizes is ignored due to existing aggregate.
2021-08-23 13:17:31 [INFO] Building aggregate for 500kbp_raw network.
2021-08-23 13:17:31 [INFO] Writing every 10 Runs.
2021-08-23 13:17:31 [INFO] Processing SRX2821667. (1/2)
2021-08-23 13:17:31 [INFO] Processing SRX2821667-SRR5558501. (1/2)
2021-08-23 13:17:36 [INFO] Processing SRX2821666. (2/2)
2021-08-23 13:17:36 [INFO] Processing SRX2821666-SRR5558500. (2/2)
2021-08-23 13:17:44 [INFO] Writing to disk...
2021-08-23 13:17:45 [INFO] Finished.