Rename enclone_print -> enclone_process.

10XGenomics · Apr 2, 2024 · 6366f91 · 6366f91
1 parent d482852
commit 6366f91
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Showing 23 changed files with 19 additions and 19 deletions.
diff --git a/Cargo.lock b/Cargo.lock
diff --git a/Cargo.toml b/Cargo.toml
@@ -9,7 +9,7 @@ members = [
     "enclone",
     "enclone_args",
     "enclone_core",
-    "enclone_print",
+    "enclone_process",
     "enclone_proto",
     "enclone_ranger",
     "enclone_stuff",

diff --git a/GUIDE b/GUIDE
@@ -10,7 +10,7 @@ enclone_exec          just the actual main program
 enclone_help          help menus from the command line
 enclone_main          this includes the enclone main program guts
 enclone_paper         calculations for enclone paper
-enclone_print         prints clonotypes in the sense of creating the "pictures" (much of core logic)
+enclone_process       final filtering and output of clonotypes
 enclone_proto         stuff for communicating with Loupe, and reused for other purposes
 enclone_ranger        entry point for cellranger
 enclone_stuff         things called by enclone_main and enclone_ranger

diff --git a/enclone_print/Cargo.toml → enclone_process/Cargo.toml b/enclone_print/Cargo.toml → enclone_process/Cargo.toml
@@ -1,5 +1,5 @@
 [package]
-name = "enclone_print"
+name = "enclone_process"
 version = "0.5.219"
 authors = ["""David Jaffe <david.jaffe@10xgenomics.com>,
               Nigel Delaney <nigel.delaney@10xgenomics.com>,

diff --git a/enclone_print/LICENSE.txt → enclone_process/LICENSE.txt b/enclone_print/LICENSE.txt → enclone_process/LICENSE.txt
diff --git a/enclone_print/src/define_column_info.rs → enclone_process/src/define_column_info.rs b/enclone_print/src/define_column_info.rs → enclone_process/src/define_column_info.rs
diff --git a/enclone_print/src/define_mat.rs → enclone_process/src/define_mat.rs b/enclone_print/src/define_mat.rs → enclone_process/src/define_mat.rs
diff --git a/enclone_print/src/delete_weaks.rs → enclone_process/src/delete_weaks.rs b/enclone_print/src/delete_weaks.rs → enclone_process/src/delete_weaks.rs
diff --git a/enclone_print/src/filter.rs → enclone_process/src/filter.rs b/enclone_print/src/filter.rs → enclone_process/src/filter.rs
diff --git a/enclone_print/src/get_gex_matrix_entry.rs → enclone_process/src/get_gex_matrix_entry.rs b/enclone_print/src/get_gex_matrix_entry.rs → enclone_process/src/get_gex_matrix_entry.rs
diff --git a/enclone_print/src/lib.rs → enclone_process/src/lib.rs b/enclone_print/src/lib.rs → enclone_process/src/lib.rs
diff --git a/enclone_print/src/loupe.rs → enclone_process/src/loupe.rs b/enclone_print/src/loupe.rs → enclone_process/src/loupe.rs
diff --git a/enclone_print/src/process_clonotypes.rs → enclone_process/src/process_clonotypes.rs b/enclone_print/src/process_clonotypes.rs → enclone_process/src/process_clonotypes.rs
diff --git a/enclone_ranger/Cargo.toml b/enclone_ranger/Cargo.toml
@@ -21,7 +21,7 @@ publish = false
 
 [dependencies]
 enclone_core = { path = "../enclone_core" }
-enclone_print = { path = "../enclone_print" }
+enclone_process = { path = "../enclone_process" }
 enclone_stuff = { path = "../enclone_stuff" }
 enclone = { path = "../enclone" }
 enclone_args = { path = "../enclone_args" }

diff --git a/enclone_ranger/src/main_enclone.rs b/enclone_ranger/src/main_enclone.rs
@@ -10,7 +10,7 @@ use enclone_args::load_gex::get_gex_info;
 use enclone_args::proc_args::proc_args;
 use enclone_core::defs::EncloneControl;
 use enclone_core::enclone_structs::EncloneSetup;
-use enclone_print::process_clonotypes::{process_clonotypes, OrbitProcessor};
+use enclone_process::process_clonotypes::{process_clonotypes, OrbitProcessor};
 use enclone_stuff::start::main_enclone_start;
 use std::sync::atomic::Ordering::SeqCst;
 use std::{

diff --git a/enclone_stuff/Cargo.toml b/enclone_stuff/Cargo.toml
@@ -23,7 +23,7 @@ publish = false
 amino = { path = "../amino" }
 debruijn = "0.3"
 enclone_core = { path = "../enclone_core" }
-enclone_print = { path = "../enclone_print" }
+enclone_process = { path = "../enclone_process" }
 enclone_proto = { path = "../enclone_proto" }
 enclone = { path = "../enclone" }
 enclone_args = { path = "../enclone_args" }

diff --git a/enclone_stuff/src/doublets.rs b/enclone_stuff/src/doublets.rs
@@ -9,7 +9,7 @@ use enclone_core::{
     defs::{CloneInfo, EncloneControl, ExactClonotype},
     enclone_structs::BarcodeFates,
 };
-use enclone_print::define_mat::{define_mat, setup_define_mat};
+use enclone_process::define_mat::{define_mat, setup_define_mat};
 use enclone_proto::types::DonorReferenceItem;
 use itertools::Itertools;
 use qd::Double;

diff --git a/enclone_stuff/src/fcell.rs b/enclone_stuff/src/fcell.rs
@@ -4,7 +4,7 @@
 
 use enclone_core::defs::{CloneInfo, ExactClonotype};
 use enclone_core::enclone_structs::EncloneSetup;
-use enclone_print::get_gex_matrix_entry::get_gex_matrix_entry;
+use enclone_process::get_gex_matrix_entry::get_gex_matrix_entry;
 use evalexpr::{ContextWithMutableVariables, HashMapContext};
 
 use vector_utils::{bin_position, erase_if};

diff --git a/enclone_stuff/src/some_filters.rs b/enclone_stuff/src/some_filters.rs
@@ -7,8 +7,8 @@ use crate::weak_chains::weak_chains;
 use enclone_core::barcode_fate::BarcodeFate;
 use enclone_core::defs::{CloneInfo, EncloneControl, ExactClonotype};
 use enclone_core::enclone_structs::BarcodeFates;
-use enclone_print::define_column_info::define_column_info;
-use enclone_print::define_mat::{define_mat, setup_define_mat};
+use enclone_process::define_column_info::define_column_info;
+use enclone_process::define_mat::{define_mat, setup_define_mat};
 use enclone_proto::types::DonorReferenceItem;
 use equiv::EquivRel;
 use qd::Double;

diff --git a/enclone_stuff/src/split_orbits.rs b/enclone_stuff/src/split_orbits.rs
@@ -1,7 +1,7 @@
 // Copyright (c) 2021 10x Genomics, Inc. All rights reserved.
 
 use enclone_core::defs::{CloneInfo, EncloneControl, ExactClonotype};
-use enclone_print::define_mat::{define_mat, setup_define_mat};
+use enclone_process::define_mat::{define_mat, setup_define_mat};
 use enclone_proto::types::DonorReferenceItem;
 use equiv::EquivRel;
 use qd::Double;

diff --git a/enclone_stuff/src/start.rs b/enclone_stuff/src/start.rs
@@ -23,8 +23,8 @@ use enclone_core::barcode_fate::BarcodeFate;
 use enclone_core::defs::{AlleleData, CloneInfo};
 use enclone_core::enclone_structs::{BarcodeFates, EncloneExacts, EncloneSetup, JoinInfo};
 use enclone_core::hcomp::heavy_complexity;
-use enclone_print::define_mat::{define_mat, setup_define_mat, Od};
-use enclone_print::loupe::make_donor_refs;
+use enclone_process::define_mat::{define_mat, setup_define_mat, Od};
+use enclone_process::loupe::make_donor_refs;
 use equiv::EquivRel;
 use io_utils::{fwriteln, open_for_read};
 use itertools::Itertools;

diff --git a/enclone_stuff/src/weak_chains.rs b/enclone_stuff/src/weak_chains.rs
@@ -8,7 +8,7 @@ use enclone_core::{
     defs::{CloneInfo, EncloneControl, ExactClonotype},
     enclone_structs::BarcodeFates,
 };
-use enclone_print::define_mat::{define_mat, setup_define_mat};
+use enclone_process::define_mat::{define_mat, setup_define_mat};
 use enclone_proto::types::DonorReferenceItem;
 use qd::Double;
 use rayon::prelude::*;

diff --git a/enclone_vars/src/export_code.rs b/enclone_vars/src/export_code.rs
@@ -647,7 +647,7 @@ pub fn export_code(level: usize) -> Vec<(String, String)> {
 
     // Build cvar auto file.
 
-    let actual_out = "enclone_print/src/proc_cvar_auto.rs".to_string();
+    let actual_out = "enclone_process/src/proc_cvar_auto.rs".to_string();
     let mut temp_out = "enclone_exec/testx/outputs/proc_cvar_auto.rs".to_string();
     let mut vars_loc = "enclone_vars/src/vars".to_string();
     if level == 1 {
@@ -819,7 +819,7 @@ pub fn export_code(level: usize) -> Vec<(String, String)> {
 
     // Build lvar auto file.
 
-    let actual_out = "enclone_print/src/proc_lvar_auto.rs".to_string();
+    let actual_out = "enclone_process/src/proc_lvar_auto.rs".to_string();
     let mut temp_out = "enclone_exec/testx/outputs/proc_lvar_auto.rs".to_string();
     let mut vars_loc = "enclone_vars/src/vars".to_string();
     if level == 1 {