Hi, may you help me with this problem?
error log:
WARN Encountered 1 warning while parsing the manifest:
⚠ The project field is deprecated. Use workspace instead.
╭─[/share/home/nyyswjsxy1jsq2jy/yjiang/software/FIRE-0.1.3/pixi.toml:1:1]
1 │ ╭─▶ [project]
2 │ │ authors = ["Mitchell Robert Vollger mrvollger@gmail.com"]
3 │ │ channels = ["conda-forge", "bioconda"]
4 │ │ description = "Add a short description here"
5 │ │ name = "FIRE"
6 │ │ platforms = ["osx-64", "linux-64"]
7 │ ├─▶ version = "0.1.2"
· ╰──── replace this with 'workspace'
8 │
╰────
✨ Pixi task (fire): cd $INIT_CWD && snakemake -s $PIXI_PROJECT_ROOT/workflow/Snakefile --configfile ./0L503002.yaml
Using workflow specific profile /share/home/nyyswjsxy1jsq2jy/yjiang/software/FIRE-0.1.3/workflow/profiles/default for setting default command line arguments.
INFO: Using N chromosomes: 423
Assuming unrestricted shared filesystem usage.
host: 4cpu-n1
Building DAG of jobs...
MissingInputException in rule fiber_locations in file /share/home/nyyswjsxy1jsq2jy/yjiang/software/FIRE-0.1.3/workflow/rules/coverages.smk, line 75:
Missing input files for rule fiber_locations:
output: temp/0L503002/coverage/v0.1-fiber-locations.bed.gz, temp/0L503002/coverage/v0.1-fiber-locations.bed.gz.tbi, temp/0L503002/coverage/filtered-for-coverage/v0.1-fiber-locations.bed.gz, temp/0L503002/coverage/filtered-for-coverage/v0.1-fiber-locations.bed.gz.tbi
wildcards: sm=0L503002, v=v0.1
affected files:
temp/0L503002/coverage/v0.1-ptg000178l_1_24894_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000128l_1_172922_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000182l_1_74004_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000376l_1_17850_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000319l_1_31931_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000312l_1_18024_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000144l_1_24785_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000056l_1_154164_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000150l_1_72835_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000214l_1_168460_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000135l_1_515170_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000253l_1_27614_+.fiber-locations.bed.gz
………………
Thanks in advance.
Yours,
Yi Jiang
Hi, may you help me with this problem?
error log:
WARN Encountered 1 warning while parsing the manifest:
⚠ The
projectfield is deprecated. Useworkspaceinstead.╭─[/share/home/nyyswjsxy1jsq2jy/yjiang/software/FIRE-0.1.3/pixi.toml:1:1]
1 │ ╭─▶ [project]
2 │ │ authors = ["Mitchell Robert Vollger mrvollger@gmail.com"]
3 │ │ channels = ["conda-forge", "bioconda"]
4 │ │ description = "Add a short description here"
5 │ │ name = "FIRE"
6 │ │ platforms = ["osx-64", "linux-64"]
7 │ ├─▶ version = "0.1.2"
· ╰──── replace this with 'workspace'
8 │
╰────
✨ Pixi task (fire): cd $INIT_CWD && snakemake -s $PIXI_PROJECT_ROOT/workflow/Snakefile --configfile ./0L503002.yaml
Using workflow specific profile /share/home/nyyswjsxy1jsq2jy/yjiang/software/FIRE-0.1.3/workflow/profiles/default for setting default command line arguments.
INFO: Using N chromosomes: 423
Assuming unrestricted shared filesystem usage.
host: 4cpu-n1
Building DAG of jobs...
MissingInputException in rule fiber_locations in file /share/home/nyyswjsxy1jsq2jy/yjiang/software/FIRE-0.1.3/workflow/rules/coverages.smk, line 75:
Missing input files for rule fiber_locations:
output: temp/0L503002/coverage/v0.1-fiber-locations.bed.gz, temp/0L503002/coverage/v0.1-fiber-locations.bed.gz.tbi, temp/0L503002/coverage/filtered-for-coverage/v0.1-fiber-locations.bed.gz, temp/0L503002/coverage/filtered-for-coverage/v0.1-fiber-locations.bed.gz.tbi
wildcards: sm=0L503002, v=v0.1
affected files:
temp/0L503002/coverage/v0.1-ptg000178l_1_24894_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000128l_1_172922_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000182l_1_74004_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000376l_1_17850_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000319l_1_31931_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000312l_1_18024_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000144l_1_24785_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000056l_1_154164_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000150l_1_72835_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000214l_1_168460_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000135l_1_515170_+.fiber-locations.bed.gz
temp/0L503002/coverage/v0.1-ptg000253l_1_27614_+.fiber-locations.bed.gz
………………
Thanks in advance.
Yours,
Yi Jiang