break up main annotation function into small pieces #753
Annotations
11 warnings
|
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: 10XGenomics/clippy-check@main. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
|
|
Run clippy:
vector_utils/src/lib.rs#L138
warning: `if` chain can be rewritten with `match`
--> vector_utils/src/lib.rs:138:9
|
138 | / if x[i] < y[j] {
139 | | i += 1;
140 | | } else if y[j] < x[i] {
141 | | j += 1;
142 | | } else {
143 | | return true;
144 | | }
| |_________^
|
= help: consider rewriting the `if` chain to use `cmp` and `match`
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#comparison_chain
= note: `#[warn(clippy::comparison_chain)]` on by default
|
|
Run clippy:
vector_utils/src/lib.rs#L158
warning: `if` chain can be rewritten with `match`
--> vector_utils/src/lib.rs:158:9
|
158 | / if x[i] < y[j] {
159 | | i += 1;
160 | | } else if y[j] < x[i] {
161 | | j += 1;
... |
165 | | j += 1;
166 | | }
| |_________^
|
= help: consider rewriting the `if` chain to use `cmp` and `match`
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#comparison_chain
|
|
Run clippy:
vector_utils/src/lib.rs#L177
warning: `if` chain can be rewritten with `match`
--> vector_utils/src/lib.rs:177:9
|
177 | / if x[ix] < y[iy] {
178 | | ix += 1;
179 | | } else if y[iy] < x[ix] {
180 | | iy += 1;
... |
184 | | iy += 1;
185 | | }
| |_________^
|
= help: consider rewriting the `if` chain to use `cmp` and `match`
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#comparison_chain
|
|
Run clippy:
tables/src/lib.rs#L255
warning: `if` chain can be rewritten with `match`
--> tables/src/lib.rs:255:17
|
255 | / if have > need {
256 | | if debug_print {
257 | | println!(
258 | | "adding {} spaces to right of row {} col {}",
... |
272 | | ext[k - 1] += need - have;
273 | | }
| |_________________^
|
= help: consider rewriting the `if` chain to use `cmp` and `match`
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#comparison_chain
= note: `#[warn(clippy::comparison_chain)]` on by default
|
|
Run clippy:
vdj_ann/src/annotate.rs#L303
warning: this function has too many arguments (8/7)
--> vdj_ann/src/annotate.rs:303:1
|
303 | / pub fn annotate_seq_core(
304 | | b: &DnaString,
305 | | refdata: &RefData,
306 | | ann: &mut Vec<Annotation>,
... |
311 | | verbose: bool,
312 | | ) {
| |__^
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#too_many_arguments
= note: `#[warn(clippy::too_many_arguments)]` on by default
|
|
Run clippy:
vdj_ann/src/annotate.rs#L3334
warning: this function has too many arguments (15/7)
--> vdj_ann/src/annotate.rs:3334:5
|
3334 | / pub fn from_annotate_seq(
3335 | | b: &DnaString, // the contig
3336 | | q: &[u8], // qual scores for the contig
3337 | | tigname: &str, // name of the contig
... |
3349 | | jsupp: Option<JunctionSupport>, // num reads, umis supporting junction
3350 | | ) -> ContigAnnotation {
| |_________________________^
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#too_many_arguments
|
|
Run clippy:
vdj_ann/src/annotate.rs#L3461
warning: this function has too many arguments (12/7)
--> vdj_ann/src/annotate.rs:3461:5
|
3461 | / pub fn from_seq(
3462 | | b: &DnaString, // the contig
3463 | | q: &[u8], // qual scores for the contig
3464 | | tigname: &str, // name of the contig
... |
3473 | | jsupp: Option<JunctionSupport>, // num reads, umis supporting junction
3474 | | ) -> ContigAnnotation {
| |_________________________^
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#too_many_arguments
|
|
Run clippy:
vdj_ann/src/transcript.rs#L286
warning: this function has too many arguments (8/7)
--> vdj_ann/src/transcript.rs:286:1
|
286 | / pub fn junction_supp(
287 | | tig: &DnaString,
288 | | reads: &[DnaString],
289 | | x: &Hyper,
... |
294 | | is_gd: Option<bool>,
295 | | ) {
| |__^
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#too_many_arguments
|
|
Run clippy:
dna/src/lib.rs#L129
warning: this function has too many arguments (12/7)
--> dna/src/lib.rs:129:1
|
129 | / pub fn get_thermodynamic_parameters_dna(
130 | | dh: &mut Vec<Vec<f64>>,
131 | | ds: &mut Vec<Vec<f64>>,
132 | | dg: &mut Vec<Vec<f64>>,
... |
141 | | dg_symmetry_correction: &mut f64,
142 | | ) {
| |__^
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#too_many_arguments
= note: `#[warn(clippy::too_many_arguments)]` on by default
|
|
Run clippy:
vdj_ann_ref/src/lib.rs#L71
warning: this function has too many arguments (8/7)
--> vdj_ann_ref/src/lib.rs:71:1
|
71 | / pub fn make_vdj_ref_data(
72 | | refdata: &mut RefData,
73 | | imgt: bool,
74 | | species: &str,
... |
79 | | mouse_supp_ref: &str,
80 | | ) {
| |__^
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#too_many_arguments
= note: `#[warn(clippy::too_many_arguments)]` on by default
|
Loading