Louis BECQUEY / RNANet

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Louis BECQUEY
e70f9e6a 1 parent 550e1ac2

from-scratch now removes CIFs and annotations

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Showing 2 changed files with 4 additions and 3 deletions
...@@ -20,4 +20,5 @@ ...@@ -20,4 +20,5 @@
20 * [UPCOMING] Automated annotation of detected Recurrent Interaction Networks (RINs), see http://carnaval.lri.fr/ . 20 * [UPCOMING] Automated annotation of detected Recurrent Interaction Networks (RINs), see http://carnaval.lri.fr/ .
21 * [UPCOMING] Possibly, automated detection of HLs and ILs from the 3D Motif Atlas (BGSU). Maybe. Their own website already does the job. 21 * [UPCOMING] Possibly, automated detection of HLs and ILs from the 3D Motif Atlas (BGSU). Maybe. Their own website already does the job.
22 * A field estimating the quality of the sequence alignment in table family. 22 * A field estimating the quality of the sequence alignment in table family.
23 -* Possibly, more metrics about the alignments coming from Infernal.
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23 +* Possibly, more metrics about the alignments coming from Infernal.
24 +* Move to SILVA LSU release 138
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...@@ -1072,8 +1072,8 @@ class Pipeline: ...@@ -1072,8 +1072,8 @@ class Pipeline:
1072 elif opt == "--from-scratch": 1072 elif opt == "--from-scratch":
1073 warn("Deleting previous database and recomputing from scratch.") 1073 warn("Deleting previous database and recomputing from scratch.")
1074 subprocess.run(["rm", "-rf", 1074 subprocess.run(["rm", "-rf",
1075 - # path_to_3D_data + "annotations", # DEBUG : keep the annotations ! 1075 + path_to_3D_data + "annotations",
1076 - # path_to_3D_data + "RNAcifs", # DEBUG : keep the cifs ! 1076 + path_to_3D_data + "RNAcifs",
1077 path_to_3D_data + "rna_mapped_to_Rfam", 1077 path_to_3D_data + "rna_mapped_to_Rfam",
1078 path_to_3D_data + "rnaonly", 1078 path_to_3D_data + "rnaonly",
1079 path_to_seq_data + "realigned", 1079 path_to_seq_data + "realigned",
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